Search to RefSeqBP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-007336
(1400 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001029567.1| heterogeneous nuclear ribonucleoprotein C [B... 321 9e-88
Alignment gi|NP_001071400.1| RNA-binding Raly-like protein [Bos taurus]. 191 1e-48
Alignment gi|NP_001014847.1| RNA-binding protein Raly [Bos taurus]. 162 7e-40
Alignment gi|NP_001014901.1| RNA-binding protein 14 [Bos taurus]. 52 1e-06
Alignment gi|NP_001165510.1| heterogeneous nuclear ribonucleoprotein G [B... 51 3e-06
Alignment gi|NP_001030349.1| serine/arginine-rich splicing factor 6 [Bos ... 49 8e-06
>ref|NP_001029567.1| heterogeneous nuclear ribonucleoprotein C [Bos taurus].
Length = 294
Score = 321 bits (823), Expect = 9e-88
Identities = 189/307 (61%), Positives = 189/307 (61%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 168 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 227
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 228 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 287
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 288 ANGEDDS 294
>ref|NP_001071400.1| RNA-binding Raly-like protein [Bos taurus].
Length = 293
Score = 191 bits (485), Expect = 1e-48
Identities = 109/218 (50%), Positives = 136/218 (62%), Gaps = 4/218 (1%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
++ KT SNVTNK DP+S+NSRVFIGNLNT +VKK D+EAIFSKYGKIVGCSVHKG+AFV
Sbjct: 1 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXX 508
QY++ER+ARAAVAGE+ R+IAGQ LDIN+A EPK R K G KR + +Y +
Sbjct: 61 QYMSERHARAAVAGENARIIAGQPLDINMAGEPKPYRPKPGNKRPISALY-RLESKEPFL 119
Query: 509 XXXXXXFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFN- 685
FD DY ++ D+Y+R++ Y KR R + T+RRGK F+
Sbjct: 120 SVGGYVFDYDY-YRDDFYNRLFDYHGRVPPPPRAVIPL---KRPRAAVTTTRRGKGVFSM 175
Query: 686 ---XXXXXXXXXXXXXXXXXDDLQAIKKELTQIKQKVD 790
D+LQ IKKELTQIK K+D
Sbjct: 176 KGGSRSAVSGSSSSGSKLKSDELQTIKKELTQIKTKID 213
>ref|NP_001014847.1| RNA-binding protein Raly [Bos taurus].
Length = 283
Score = 162 bits (410), Expect = 7e-40
Identities = 79/110 (71%), Positives = 94/110 (85%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
+S K SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMY 478
QY NER+ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+ +Y
Sbjct: 61 QYANERHARAAVVGENGRVLAGQTLDINMAGEPKPNRPK-GLKRAASAIY 109
>ref|NP_001014901.1| RNA-binding protein 14 [Bos taurus].
Length = 669
Score = 52.0 bits (123), Expect = 1e-06
Identities = 23/84 (27%), Positives = 53/84 (63%), Gaps = 1/84 (1%)
Frame = +2
Query: 176 VTNKTDPRSMNS-RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERNA 352
V + PR +N+ ++F+GN++ + ++ ++F + G+++ C V K +AFV E +A
Sbjct: 67 VVEMSRPRPLNTWKIFVGNVSAACTSQ-ELRSLFERRGRVIECDVVKDYAFVHMEKEADA 125
Query: 353 RAAVAGEDGRMIAGQVLDINLAAE 424
+AA+A +G+ + G+ +++ L+ +
Sbjct: 126 KAAIAQLNGKEVKGKRINVELSTK 149
>ref|NP_001165510.1| heterogeneous nuclear ribonucleoprotein G [Bos taurus].
Length = 391
Score = 50.8 bits (120), Expect = 3e-06
Identities = 29/88 (32%), Positives = 49/88 (55%), Gaps = 8/88 (9%)
Frame = +2
Query: 212 RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHK--------GFAFVQYVNERNARAAVA 367
++FIG LNT +K+ +EA+F KYG+IV + K GFAFV + + +A+ A
Sbjct: 9 KLFIGGLNTETNEKA-LEAVFGKYGRIVEVLLMKDRETNKSRGFAFVTFESPADAKDAAR 67
Query: 368 GEDGRMIAGQVLDINLAAEPKVNRGKAG 451
+G+ + G+ + + A +P G+ G
Sbjct: 68 DMNGKSLDGKAIKVEQATKPSFESGRRG 95
>ref|NP_001030349.1| serine/arginine-rich splicing factor 6 [Bos taurus].
Length = 345
Score = 49.3 bits (116), Expect = 8e-06
Identities = 29/92 (31%), Positives = 53/92 (57%), Gaps = 1/92 (1%)
Frame = +2
Query: 212 RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIA 391
RV+IG L+ V++ D++ FS YG+++G + G+ FV++ + R+A AV +G+ +
Sbjct: 3 RVYIGRLS-YNVREKDIQRFFSGYGRLLGIDLKNGYGFVEFEDSRDADDAVYELNGKELC 61
Query: 392 GQVLDINLAAEPKVNR-GKAGVKRSAAEMYGS 484
G+ + + A P+ +R G + RS Y S
Sbjct: 62 GERVIVEHARGPRRDRDGYSYGSRSGGGGYSS 93
Database: RefSeq49_BP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 17,681,374
Number of sequences in database: 33,088
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33088
Number of Hits to DB: 42,652,625
Number of extensions: 1010068
Number of successful extensions: 2691
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 2666
Number of HSP's successfully gapped: 6
Length of query: 466
Length of database: 17,681,374
Length adjustment: 106
Effective length of query: 360
Effective length of database: 14,174,046
Effective search space: 5102656560
Effective search space used: 5102656560
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqCP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-007336
(1400 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_863848.1| PREDICTED: similar to Heterogeneous nuclear rib... 336 3e-92
Alignment gi|XP_863830.1| PREDICTED: similar to Heterogeneous nuclear rib... 336 3e-92
Alignment gi|XP_863808.1| PREDICTED: similar to Heterogeneous nuclear rib... 336 3e-92
Alignment gi|XP_863761.1| PREDICTED: similar to Heterogeneous nuclear rib... 336 3e-92
Alignment gi|XP_851458.1| PREDICTED: similar to Heterogeneous nuclear rib... 332 5e-91
Alignment gi|XP_532622.1| PREDICTED: similar to heterogeneous nuclear rib... 321 9e-88
Alignment gi|XP_863957.1| PREDICTED: similar to heterogeneous nuclear rib... 321 9e-88
Alignment gi|XP_863937.1| PREDICTED: similar to heterogeneous nuclear rib... 321 9e-88
Alignment gi|XP_863916.1| PREDICTED: similar to heterogeneous nuclear rib... 321 9e-88
Alignment gi|XP_863897.1| PREDICTED: similar to heterogeneous nuclear rib... 321 9e-88
>ref|XP_863848.1| PREDICTED: similar to Heterogeneous nuclear ribonucleoproteins C1/C2
(hnRNP C1 / hnRNP C2) isoform 22 [Canis familiaris].
Length = 307
Score = 336 bits (862), Expect = 3e-92
Identities = 193/307 (62%), Positives = 193/307 (62%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEH
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHPSPSPLLSS 120
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 121 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 180
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 181 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 240
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 241 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 300
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 301 ANGEDDS 307
>ref|XP_863830.1| PREDICTED: similar to Heterogeneous nuclear ribonucleoproteins C1/C2
(hnRNP C1 / hnRNP C2) isoform 21 [Canis familiaris].
Length = 307
Score = 336 bits (862), Expect = 3e-92
Identities = 193/307 (62%), Positives = 193/307 (62%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEH
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHPSPSPLLSS 120
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 121 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 180
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 181 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 240
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 241 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 300
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 301 ANGEDDS 307
>ref|XP_863808.1| PREDICTED: similar to Heterogeneous nuclear ribonucleoproteins C1/C2
(hnRNP C1 / hnRNP C2) isoform 20 [Canis familiaris].
Length = 307
Score = 336 bits (862), Expect = 3e-92
Identities = 193/307 (62%), Positives = 193/307 (62%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEH
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHPSPSPLLSS 120
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 121 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 180
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 181 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 240
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 241 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 300
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 301 ANGEDDS 307
>ref|XP_863761.1| PREDICTED: similar to Heterogeneous nuclear ribonucleoproteins C1/C2
(hnRNP C1 / hnRNP C2) isoform 19 [Canis familiaris].
Length = 307
Score = 336 bits (862), Expect = 3e-92
Identities = 193/307 (62%), Positives = 193/307 (62%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEH
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHPSPSPLLSS 120
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 121 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 180
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 181 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 240
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 241 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 300
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 301 ANGEDDS 307
>ref|XP_851458.1| PREDICTED: similar to Heterogeneous nuclear ribonucleoproteins C1/C2
(hnRNP C1 / hnRNP C2) isoform 3 [Canis familiaris].
Length = 302
Score = 332 bits (851), Expect = 5e-91
Identities = 193/307 (62%), Positives = 193/307 (62%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEH
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEH-----PSPS 115
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 116 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 175
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 176 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 235
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 236 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 295
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 296 ANGEDDS 302
>ref|XP_532622.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 1 [Canis familiaris].
Length = 294
Score = 321 bits (823), Expect = 9e-88
Identities = 189/307 (61%), Positives = 189/307 (61%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 168 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 227
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 228 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 287
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 288 ANGEDDS 294
>ref|XP_863957.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 27 [Canis familiaris].
Length = 294
Score = 321 bits (823), Expect = 9e-88
Identities = 189/307 (61%), Positives = 189/307 (61%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 168 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 227
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 228 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 287
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 288 ANGEDDS 294
>ref|XP_863937.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 26 [Canis familiaris].
Length = 294
Score = 321 bits (823), Expect = 9e-88
Identities = 189/307 (61%), Positives = 189/307 (61%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 168 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 227
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 228 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 287
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 288 ANGEDDS 294
>ref|XP_863916.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 25 [Canis familiaris].
Length = 294
Score = 321 bits (823), Expect = 9e-88
Identities = 189/307 (61%), Positives = 189/307 (61%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 168 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 227
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 228 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 287
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 288 ANGEDDS 294
>ref|XP_863897.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 24 [Canis familiaris].
Length = 294
Score = 321 bits (823), Expect = 9e-88
Identities = 189/307 (61%), Positives = 189/307 (61%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQ IKKELTQIKQKVD G EMKN
Sbjct: 168 GSSSKSGKLKGDDLQTIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 227
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 228 SSLKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 287
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 288 ANGEDDS 294
Database: RefSeq49_CP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,874,504
Number of sequences in database: 33,336
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33336
Number of Hits to DB: 44,655,763
Number of extensions: 1029377
Number of successful extensions: 3304
Number of sequences better than 1.0e-05: 41
Number of HSP's gapped: 3143
Number of HSP's successfully gapped: 45
Length of query: 466
Length of database: 18,874,504
Length adjustment: 106
Effective length of query: 360
Effective length of database: 15,340,888
Effective search space: 5522719680
Effective search space used: 5522719680
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 36 (18.5 bits)
Search to RefSeqHP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-007336
(1400 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001070910.1| heterogeneous nuclear ribonucleoproteins C1/... 328 7e-90
Alignment gi|NP_112604.2| heterogeneous nuclear ribonucleoproteins C1/C2 ... 328 7e-90
Alignment gi|NP_001070911.1| heterogeneous nuclear ribonucleoproteins C1/... 316 3e-86
Alignment gi|NP_004491.2| heterogeneous nuclear ribonucleoproteins C1/C2 ... 316 3e-86
Alignment gi|NP_001013653.1| heterogeneous nuclear ribonucleoprotein C-li... 282 5e-76
Alignment gi|NP_001139653.1| heterogeneous nuclear ribonucleoprotein C-li... 281 8e-76
Alignment gi|NP_001130033.2| heterogeneous nuclear ribonucleoprotein C-li... 275 6e-74
Alignment gi|NP_001093863.1| RNA-binding Raly-like protein isoform 2 [Hom... 193 3e-49
Alignment gi|NP_001093862.1| RNA-binding Raly-like protein isoform 2 [Hom... 193 3e-49
Alignment gi|NP_001093861.1| RNA-binding Raly-like protein isoform 1 [Hom... 193 3e-49
>ref|NP_001070910.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform a [Homo
sapiens].
Length = 306
Score = 328 bits (841), Expect = 7e-90
Identities = 192/307 (62%), Positives = 192/307 (62%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSV EH
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVTEHPSPSPLLSS 120
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 121 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFN-SKSGQ 179
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQAIKKELTQIKQKVD EMKN
Sbjct: 180 RGSSKSGKLKGDDLQAIKKELTQIKQKVDSLLENLEKIEKEQSKQAVEMKNDKSEEEQSS 239
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 240 SSVKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 299
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 300 ANGEDDS 306
>ref|NP_112604.2| heterogeneous nuclear ribonucleoproteins C1/C2 isoform a [Homo
sapiens].
Length = 306
Score = 328 bits (841), Expect = 7e-90
Identities = 192/307 (62%), Positives = 192/307 (62%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSV EH
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVTEHPSPSPLLSS 120
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 121 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFN-SKSGQ 179
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQAIKKELTQIKQKVD EMKN
Sbjct: 180 RGSSKSGKLKGDDLQAIKKELTQIKQKVDSLLENLEKIEKEQSKQAVEMKNDKSEEEQSS 239
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 240 SSVKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 299
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 300 ANGEDDS 306
>ref|NP_001070911.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform b [Homo
sapiens].
Length = 293
Score = 316 bits (810), Expect = 3e-86
Identities = 189/307 (61%), Positives = 189/307 (61%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFN-SKSGQ 166
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQAIKKELTQIKQKVD EMKN
Sbjct: 167 RGSSKSGKLKGDDLQAIKKELTQIKQKVDSLLENLEKIEKEQSKQAVEMKNDKSEEEQSS 226
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 227 SSVKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 286
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 287 ANGEDDS 293
>ref|NP_004491.2| heterogeneous nuclear ribonucleoproteins C1/C2 isoform b [Homo
sapiens].
Length = 293
Score = 316 bits (810), Expect = 3e-86
Identities = 189/307 (61%), Positives = 189/307 (61%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFN-SKSGQ 166
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQAIKKELTQIKQKVD EMKN
Sbjct: 167 RGSSKSGKLKGDDLQAIKKELTQIKQKVDSLLENLEKIEKEQSKQAVEMKNDKSEEEQSS 226
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 227 SSVKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 286
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 287 ANGEDDS 293
>ref|NP_001013653.1| heterogeneous nuclear ribonucleoprotein C-like 1 [Homo sapiens].
Length = 293
Score = 282 bits (722), Expect = 5e-76
Identities = 171/307 (55%), Positives = 179/307 (58%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNK DP SMNSRVFIGNLNTLVVKKSDVEAIFSKYGKI GCSVHKGFAFVQY E
Sbjct: 1 MASNVTNKMDPHSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIAGCSVHKGFAFVQYDKE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
+NARAAVAGEDGRMIA QV+DINLAAEPKVNRG AGVKRSAAEMYGS
Sbjct: 61 KNARAAVAGEDGRMIASQVVDINLAAEPKVNRGNAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDY FQRDYYD MYS+ SKRQR+SGNTSRRGKSGFN
Sbjct: 108 SFDLDYGFQRDYYDGMYSFPARVPPPPPIALAVVPSKRQRLSGNTSRRGKSGFN-SKSGK 166
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQAIK+ELTQIKQKVD E+KN
Sbjct: 167 RGSSKSGKLKGDDLQAIKQELTQIKQKVDSLLENLEKIEKEQSKQEVEVKNAKSEEEQSS 226
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
T+VKMESEGGA LI RDS
Sbjct: 227 SSMKKDETHVKMESEGGAEDSAEEGDPLDDDVNEDQGDDQLELIKDDEKEAEEGEDDRDS 286
Query: 1061 ANGEDDS 1081
NG+DDS
Sbjct: 287 TNGQDDS 293
>ref|NP_001139653.1| heterogeneous nuclear ribonucleoprotein C-like [Homo sapiens].
Length = 293
Score = 281 bits (720), Expect = 8e-76
Identities = 170/307 (55%), Positives = 179/307 (58%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNK DP SMNSRVFIGNLNTLVVKKSDVEAIFSKYGKI GCSVHKGFAFVQY E
Sbjct: 1 MASNVTNKMDPHSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIAGCSVHKGFAFVQYDKE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
+NARAAVAGEDGRMIA QV+DINLAAEPKVNRG AGVKRSAAEMYGS
Sbjct: 61 KNARAAVAGEDGRMIASQVVDINLAAEPKVNRGNAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDY+ QRDYY MYS+ SKRQR+SGNTSRRGKSGFN
Sbjct: 108 SFDLDYNLQRDYYGGMYSFPARVPPPPPIALAVVPSKRQRISGNTSRRGKSGFN-SKSGK 166
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQAIK+ELTQIKQKVD G E+KN
Sbjct: 167 RGSSKSGKLKGDDLQAIKQELTQIKQKVDSLLENLEKIEKEHCKQGVEVKNAKSEEEQTS 226
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
T+VKMESEGGA LI RD
Sbjct: 227 SSSKKDKTHVKMESEGGADDSVEEGDLLCDDDNEDQGDNQLELIKDDEKGAEEGEDDRDR 286
Query: 1061 ANGEDDS 1081
ANG+DDS
Sbjct: 287 ANGQDDS 293
>ref|NP_001130033.2| heterogeneous nuclear ribonucleoprotein C-like [Homo sapiens].
Length = 293
Score = 275 bits (704), Expect = 6e-74
Identities = 168/307 (54%), Positives = 176/307 (57%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNK DP S+NSRVFIGNLNTLVVKKSDVEAIFSKYGKI GCSVHKGFAFVQY E
Sbjct: 1 MASNVTNKMDPHSVNSRVFIGNLNTLVVKKSDVEAIFSKYGKIAGCSVHKGFAFVQYDKE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
+NARAAVAGEDGRMIA QV INLAAEPKVNRG AGVKRSAAEMYGS
Sbjct: 61 KNARAAVAGEDGRMIASQVAVINLAAEPKVNRGNAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDY FQRDYYD MYS+ SK QR+SGNTSRRGKSGFN
Sbjct: 108 SFDLDYGFQRDYYDGMYSFPARVPPPPPIALAVVPSKHQRISGNTSRRGKSGFN-SKSGK 166
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQAIK+ELTQIKQKVD E+KN
Sbjct: 167 RGSSKSGKLKGDDLQAIKQELTQIKQKVDSLLENLEKIEKEQSKQEVEVKNAKSEEEQSS 226
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
T+VKMESEGGA LI RDS
Sbjct: 227 SSMKKDETHVKMESEGGAEDSAEEGDPLDDDDNEDQGDNQLHLIKNNEKDAEEGEDNRDS 286
Query: 1061 ANGEDDS 1081
NG+DDS
Sbjct: 287 TNGQDDS 293
>ref|NP_001093863.1| RNA-binding Raly-like protein isoform 2 [Homo sapiens].
Length = 291
Score = 193 bits (491), Expect = 3e-49
Identities = 110/216 (50%), Positives = 137/216 (63%), Gaps = 2/216 (0%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
++ KT SNVTNK DP+S+NSRVFIGNLNT +VKK D+EAIFSKYGKIVGCSVHKG+AFV
Sbjct: 1 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXX 508
QY++ER+ARAAVAGE+ R+IAGQ LDIN+A EPK R K G KR + +Y +
Sbjct: 61 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGNKRPLSALY-RLESKEPFL 119
Query: 509 XXXXXXFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFN- 685
FD DY ++ D+Y+R++ Y KR RV+ T+RRGK F+
Sbjct: 120 SVGGYVFDYDY-YRDDFYNRLFDYHGRVPPPPRAVIPL---KRPRVAVTTTRRGKGVFSM 175
Query: 686 -XXXXXXXXXXXXXXXXXDDLQAIKKELTQIKQKVD 790
D+LQ IKKELTQIK K+D
Sbjct: 176 KGGSRSTASGSTGSKLKSDELQTIKKELTQIKTKID 211
>ref|NP_001093862.1| RNA-binding Raly-like protein isoform 2 [Homo sapiens].
Length = 291
Score = 193 bits (491), Expect = 3e-49
Identities = 110/216 (50%), Positives = 137/216 (63%), Gaps = 2/216 (0%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
++ KT SNVTNK DP+S+NSRVFIGNLNT +VKK D+EAIFSKYGKIVGCSVHKG+AFV
Sbjct: 1 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXX 508
QY++ER+ARAAVAGE+ R+IAGQ LDIN+A EPK R K G KR + +Y +
Sbjct: 61 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGNKRPLSALY-RLESKEPFL 119
Query: 509 XXXXXXFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFN- 685
FD DY ++ D+Y+R++ Y KR RV+ T+RRGK F+
Sbjct: 120 SVGGYVFDYDY-YRDDFYNRLFDYHGRVPPPPRAVIPL---KRPRVAVTTTRRGKGVFSM 175
Query: 686 -XXXXXXXXXXXXXXXXXDDLQAIKKELTQIKQKVD 790
D+LQ IKKELTQIK K+D
Sbjct: 176 KGGSRSTASGSTGSKLKSDELQTIKKELTQIKTKID 211
>ref|NP_001093861.1| RNA-binding Raly-like protein isoform 1 [Homo sapiens].
Length = 304
Score = 193 bits (491), Expect = 3e-49
Identities = 110/216 (50%), Positives = 137/216 (63%), Gaps = 2/216 (0%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
++ KT SNVTNK DP+S+NSRVFIGNLNT +VKK D+EAIFSKYGKIVGCSVHKG+AFV
Sbjct: 14 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 73
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXX 508
QY++ER+ARAAVAGE+ R+IAGQ LDIN+A EPK R K G KR + +Y +
Sbjct: 74 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGNKRPLSALY-RLESKEPFL 132
Query: 509 XXXXXXFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFN- 685
FD DY ++ D+Y+R++ Y KR RV+ T+RRGK F+
Sbjct: 133 SVGGYVFDYDY-YRDDFYNRLFDYHGRVPPPPRAVIPL---KRPRVAVTTTRRGKGVFSM 188
Query: 686 -XXXXXXXXXXXXXXXXXDDLQAIKKELTQIKQKVD 790
D+LQ IKKELTQIK K+D
Sbjct: 189 KGGSRSTASGSTGSKLKSDELQTIKKELTQIKTKID 224
Database: RefSeq49_HP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,297,164
Number of sequences in database: 32,964
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 32964
Number of Hits to DB: 43,712,947
Number of extensions: 1007845
Number of successful extensions: 2862
Number of sequences better than 1.0e-05: 18
Number of HSP's gapped: 2795
Number of HSP's successfully gapped: 18
Length of query: 466
Length of database: 18,297,164
Length adjustment: 106
Effective length of query: 360
Effective length of database: 14,802,980
Effective search space: 5329072800
Effective search space used: 5329072800
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 36 (18.5 bits)
Search to RefSeqMP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-007336
(1400 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_058580.1| heterogeneous nuclear ribonucleoproteins C1/C2 ... 324 9e-89
Alignment gi|NP_001164455.1| heterogeneous nuclear ribonucleoproteins C1/... 317 2e-86
Alignment gi|NP_001164454.1| heterogeneous nuclear ribonucleoproteins C1/... 312 5e-85
Alignment gi|NP_001164453.1| heterogeneous nuclear ribonucleoproteins C1/... 309 3e-84
Alignment gi|NP_001164452.1| heterogeneous nuclear ribonucleoproteins C1/... 309 3e-84
Alignment gi|NP_001156800.1| RNA-binding Raly-like protein isoform a [Mus... 192 4e-49
Alignment gi|NP_848746.1| RNA-binding Raly-like protein isoform a [Mus mu... 192 4e-49
Alignment gi|NP_001132985.1| RNA-binding protein Raly long isoform [Mus m... 175 9e-44
Alignment gi|NP_075619.2| RNA-binding protein Raly short isoform [Mus mus... 161 1e-39
Alignment gi|NP_001132984.1| RNA-binding protein Raly short isoform [Mus ... 161 1e-39
>ref|NP_058580.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform 1 [Mus
musculus].
Length = 313
Score = 324 bits (831), Expect = 9e-89
Identities = 191/314 (60%), Positives = 191/314 (60%), Gaps = 8/314 (2%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEH
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHPSPSPLLSS 120
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 121 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 180
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG--------EMKNXX 859
DDLQAIKKELTQIKQKVD EMKN
Sbjct: 181 GSSSKSGKLKGDDLQAIKKELTQIKQKVDSLLESLEKIEKEQSKQADLSFSSPVEMKNEK 240
Query: 860 XXXXXXXXXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXX 1039
TNVKMESE GA L
Sbjct: 241 SEEEQSSASVKKDETNVKMESEAGADDSAEEGDLLDDDDNEDRGDDQLEL-KDDEKEPEE 299
Query: 1040 XXXXRDSANGEDDS 1081
RDSANGEDDS
Sbjct: 300 GEDDRDSANGEDDS 313
>ref|NP_001164455.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform 4 [Mus
musculus].
Length = 292
Score = 317 bits (811), Expect = 2e-86
Identities = 187/306 (61%), Positives = 187/306 (61%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXGEMKNXXXXXXXXXX 883
DDLQAIKKELTQIKQKVD EMKN
Sbjct: 168 GSSSKSGKLKGDDLQAIKKELTQIKQKVDSLLESLEKIEKEQSKQAEMKNEKSEEEQSSA 227
Query: 884 XXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDSA 1063
TNVKMESE GA L RDSA
Sbjct: 228 SVKKDETNVKMESEAGADDSAEEGDLLDDDDNEDRGDDQLEL-KDDEKEPEEGEDDRDSA 286
Query: 1064 NGEDDS 1081
NGEDDS
Sbjct: 287 NGEDDS 292
>ref|NP_001164454.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform 3 [Mus
musculus].
Length = 293
Score = 312 bits (799), Expect = 5e-85
Identities = 187/307 (60%), Positives = 187/307 (60%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQAIKKELTQIKQKVD EMKN
Sbjct: 168 GSSSKSGKLKGDDLQAIKKELTQIKQKVDSLLESLEKIEKEQSKQAVEMKNEKSEEEQSS 227
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESE GA L RDS
Sbjct: 228 ASVKKDETNVKMESEAGADDSAEEGDLLDDDDNEDRGDDQLEL-KDDEKEPEEGEDDRDS 286
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 287 ANGEDDS 293
>ref|NP_001164453.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform 2 [Mus
musculus].
Length = 300
Score = 309 bits (792), Expect = 3e-84
Identities = 187/314 (59%), Positives = 187/314 (59%), Gaps = 8/314 (2%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG--------EMKNXX 859
DDLQAIKKELTQIKQKVD EMKN
Sbjct: 168 GSSSKSGKLKGDDLQAIKKELTQIKQKVDSLLESLEKIEKEQSKQADLSFSSPVEMKNEK 227
Query: 860 XXXXXXXXXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXX 1039
TNVKMESE GA L
Sbjct: 228 SEEEQSSASVKKDETNVKMESEAGADDSAEEGDLLDDDDNEDRGDDQLEL-KDDEKEPEE 286
Query: 1040 XXXXRDSANGEDDS 1081
RDSANGEDDS
Sbjct: 287 GEDDRDSANGEDDS 300
>ref|NP_001164452.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform 2 [Mus
musculus].
Length = 300
Score = 309 bits (792), Expect = 3e-84
Identities = 187/314 (59%), Positives = 187/314 (59%), Gaps = 8/314 (2%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG--------EMKNXX 859
DDLQAIKKELTQIKQKVD EMKN
Sbjct: 168 GSSSKSGKLKGDDLQAIKKELTQIKQKVDSLLESLEKIEKEQSKQADLSFSSPVEMKNEK 227
Query: 860 XXXXXXXXXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXX 1039
TNVKMESE GA L
Sbjct: 228 SEEEQSSASVKKDETNVKMESEAGADDSAEEGDLLDDDDNEDRGDDQLEL-KDDEKEPEE 286
Query: 1040 XXXXRDSANGEDDS 1081
RDSANGEDDS
Sbjct: 287 GEDDRDSANGEDDS 300
>ref|NP_001156800.1| RNA-binding Raly-like protein isoform a [Mus musculus].
Length = 293
Score = 192 bits (489), Expect = 4e-49
Identities = 109/218 (50%), Positives = 137/218 (62%), Gaps = 4/218 (1%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
++ KT SN+TNK DP+S+NSRVFIGNLNT +VKK D+EAIFSKYGKIVGCSVHKG+AFV
Sbjct: 1 MTGKTQTSNITNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXX 508
QY++ER+ARAAVAGE+ R+IAGQ LDIN+A EPK R K G KR + +Y +
Sbjct: 61 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGSKRPLSALY-RLESKEPFL 119
Query: 509 XXXXXXFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFN- 685
FD DY ++ D+Y+R++ Y KR RV+ T+RRGK F+
Sbjct: 120 SVGGYVFDYDY-YRDDFYNRLFDYHGRVPPPPRAVIPL---KRPRVAVTTTRRGKGVFSM 175
Query: 686 ---XXXXXXXXXXXXXXXXXDDLQAIKKELTQIKQKVD 790
D+LQ IKKELTQIK K+D
Sbjct: 176 KGGSRSTVGGSSSSGSKLKSDELQTIKKELTQIKTKID 213
>ref|NP_848746.1| RNA-binding Raly-like protein isoform a [Mus musculus].
Length = 293
Score = 192 bits (489), Expect = 4e-49
Identities = 109/218 (50%), Positives = 137/218 (62%), Gaps = 4/218 (1%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
++ KT SN+TNK DP+S+NSRVFIGNLNT +VKK D+EAIFSKYGKIVGCSVHKG+AFV
Sbjct: 1 MTGKTQTSNITNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXX 508
QY++ER+ARAAVAGE+ R+IAGQ LDIN+A EPK R K G KR + +Y +
Sbjct: 61 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGSKRPLSALY-RLESKEPFL 119
Query: 509 XXXXXXFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFN- 685
FD DY ++ D+Y+R++ Y KR RV+ T+RRGK F+
Sbjct: 120 SVGGYVFDYDY-YRDDFYNRLFDYHGRVPPPPRAVIPL---KRPRVAVTTTRRGKGVFSM 175
Query: 686 ---XXXXXXXXXXXXXXXXXDDLQAIKKELTQIKQKVD 790
D+LQ IKKELTQIK K+D
Sbjct: 176 KGGSRSTVGGSSSSGSKLKSDELQTIKKELTQIKTKID 213
>ref|NP_001132985.1| RNA-binding protein Raly long isoform [Mus musculus].
Length = 312
Score = 175 bits (443), Expect = 9e-44
Identities = 104/219 (47%), Positives = 128/219 (58%), Gaps = 5/219 (2%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
+S K SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXX 508
QY NER+ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A +Y
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRAATAIYSG-------- 111
Query: 509 XXXXXXFDLDYDFQRDYY-DRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFN 685
+ DYD+ +DY+ R++ Y KR RV+ RR K+
Sbjct: 112 ------YSFDYDYYQDYFCARLFDYRGRLSPVPVPRAVPV--KRPRVTVPLVRRVKTTIP 163
Query: 686 ----XXXXXXXXXXXXXXXXXDDLQAIKKELTQIKQKVD 790
+LQ IK ELTQIK +D
Sbjct: 164 VKLFARSTAVTTGSAKIKLKSSELQTIKTELTQIKSNID 202
>ref|NP_075619.2| RNA-binding protein Raly short isoform [Mus musculus].
Length = 296
Score = 161 bits (408), Expect = 1e-39
Identities = 79/110 (71%), Positives = 93/110 (84%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
+S K SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMY 478
QY NER+ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A +Y
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRAATAIY 109
>ref|NP_001132984.1| RNA-binding protein Raly short isoform [Mus musculus].
Length = 296
Score = 161 bits (408), Expect = 1e-39
Identities = 79/110 (71%), Positives = 93/110 (84%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
+S K SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMY 478
QY NER+ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A +Y
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRAATAIY 109
Database: RefSeq49_MP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 15,617,559
Number of sequences in database: 30,036
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 30036
Number of Hits to DB: 37,176,089
Number of extensions: 853358
Number of successful extensions: 2409
Number of sequences better than 1.0e-05: 17
Number of HSP's gapped: 2362
Number of HSP's successfully gapped: 22
Length of query: 466
Length of database: 15,617,559
Length adjustment: 105
Effective length of query: 361
Effective length of database: 12,463,779
Effective search space: 4499424219
Effective search space used: 4499424219
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqSP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-007336
(1400 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001230622.1| heterogeneous nuclear ribonucleoprotein C (C... 346 2e-95
Alignment gi|NP_001230623.1| heterogeneous nuclear ribonucleoprotein C (C... 323 2e-88
Alignment gi|XP_003134445.2| PREDICTED: RNA-binding protein Raly-like iso... 181 7e-46
Alignment gi|XP_003359995.1| PREDICTED: RNA-binding protein Raly [Sus scr... 181 7e-46
Alignment gi|XP_001929139.2| PREDICTED: RNA-binding protein Raly isoform ... 181 7e-46
Alignment gi|XP_003134451.1| PREDICTED: RNA-binding protein Raly isoform ... 162 5e-40
Alignment gi|XP_003125632.1| PREDICTED: RNA-binding Raly-like protein-lik... 139 4e-33
Alignment gi|XP_003360509.1| PREDICTED: heterogeneous nuclear ribonucleop... 51 2e-06
Alignment gi|XP_003360508.1| PREDICTED: heterogeneous nuclear ribonucleop... 51 2e-06
>ref|NP_001230622.1| heterogeneous nuclear ribonucleoprotein C (C1/C2) 1 [Sus scrofa].
Length = 313
Score = 346 bits (888), Expect = 2e-95
Identities = 199/313 (63%), Positives = 199/313 (63%), Gaps = 1/313 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEH
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHPSPSPLLSS 120
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 121 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 180
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQAIKKELTQIKQKVD G EMKN
Sbjct: 181 GSSSKSGKLKGDDLQAIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 240
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 241 SSQKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 300
Query: 1061 ANGEDDS*AHSGV 1099
ANGEDDS AHSGV
Sbjct: 301 ANGEDDSQAHSGV 313
>ref|NP_001230623.1| heterogeneous nuclear ribonucleoprotein C (C1/C2) 2 [Sus scrofa].
Length = 294
Score = 323 bits (827), Expect = 2e-88
Identities = 190/307 (61%), Positives = 190/307 (61%), Gaps = 1/307 (0%)
Frame = +2
Query: 164 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 343
MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE
Sbjct: 1 MASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNE 60
Query: 344 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXXXXXXX 523
RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS
Sbjct: 61 RNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGS------------- 107
Query: 524 XFDLDYDFQRDYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFNXXXXXX 703
FDLDYDFQRDYYDRMYSY SKRQRVSGNTSRRGKSGFN
Sbjct: 108 SFDLDYDFQRDYYDRMYSYPARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQR 167
Query: 704 XXXXXXXXXXXDDLQAIKKELTQIKQKVDXXXXXXXXXXXXXXXXG-EMKNXXXXXXXXX 880
DDLQAIKKELTQIKQKVD G EMKN
Sbjct: 168 GSSSKSGKLKGDDLQAIKKELTQIKQKVDSLLESLEKIEKEQSKQGVEMKNDKSEEEQSS 227
Query: 881 XXXXXXXTNVKMESEGGAXXXXXXXXXXXXXXXXXXXXXXXXLIXXXXXXXXXXXXXRDS 1060
TNVKMESEGGA LI RDS
Sbjct: 228 SSQKKDETNVKMESEGGADDSAEEGDLLDDDDNEDRGDDQLELIKDDEKEAEEGEDDRDS 287
Query: 1061 ANGEDDS 1081
ANGEDDS
Sbjct: 288 ANGEDDS 294
>ref|XP_003134445.2| PREDICTED: RNA-binding protein Raly-like isoform 1 [Sus scrofa].
Length = 327
Score = 181 bits (460), Expect = 7e-46
Identities = 107/219 (48%), Positives = 131/219 (59%), Gaps = 5/219 (2%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
+S K SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXX 508
QY NER+ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+ +Y
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAIYSG-------- 111
Query: 509 XXXXXXFDLDYDFQR-DYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFN 685
+ DYD+ R D+YDR++ Y KR RV+ RR K+
Sbjct: 112 ------YSFDYDYYRDDFYDRLFDYRGRLSPVPVPRAVPV--KRPRVTVPLVRRVKTTIP 163
Query: 686 ----XXXXXXXXXXXXXXXXXDDLQAIKKELTQIKQKVD 790
+LQAIK ELTQIK +D
Sbjct: 164 VKLFARSTAITTGSAKIKLKSSELQAIKTELTQIKSNID 202
>ref|XP_003359995.1| PREDICTED: RNA-binding protein Raly [Sus scrofa].
Length = 327
Score = 181 bits (460), Expect = 7e-46
Identities = 107/219 (48%), Positives = 131/219 (59%), Gaps = 5/219 (2%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
+S K SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXX 508
QY NER+ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+ +Y
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAIYSG-------- 111
Query: 509 XXXXXXFDLDYDFQR-DYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFN 685
+ DYD+ R D+YDR++ Y KR RV+ RR K+
Sbjct: 112 ------YSFDYDYYRDDFYDRLFDYRGRLSPVPVPRAVPV--KRPRVTVPLVRRVKTTIP 163
Query: 686 ----XXXXXXXXXXXXXXXXXDDLQAIKKELTQIKQKVD 790
+LQAIK ELTQIK +D
Sbjct: 164 VKLFARSTAITTGSAKIKLKSSELQAIKTELTQIKSNID 202
>ref|XP_001929139.2| PREDICTED: RNA-binding protein Raly isoform 1 [Sus scrofa].
Length = 327
Score = 181 bits (460), Expect = 7e-46
Identities = 107/219 (48%), Positives = 131/219 (59%), Gaps = 5/219 (2%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
+S K SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSVPEHXXXX 508
QY NER+ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+ +Y
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAIYSG-------- 111
Query: 509 XXXXXXFDLDYDFQR-DYYDRMYSYXXXXXXXXXXXXXXXXSKRQRVSGNTSRRGKSGFN 685
+ DYD+ R D+YDR++ Y KR RV+ RR K+
Sbjct: 112 ------YSFDYDYYRDDFYDRLFDYRGRLSPVPVPRAVPV--KRPRVTVPLVRRVKTTIP 163
Query: 686 ----XXXXXXXXXXXXXXXXXDDLQAIKKELTQIKQKVD 790
+LQAIK ELTQIK +D
Sbjct: 164 VKLFARSTAITTGSAKIKLKSSELQAIKTELTQIKSNID 202
>ref|XP_003134451.1| PREDICTED: RNA-binding protein Raly isoform 2 [Sus scrofa].
Length = 311
Score = 162 bits (409), Expect = 5e-40
Identities = 79/110 (71%), Positives = 94/110 (85%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
+S K SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMY 478
QY NER+ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+ +Y
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAIY 109
>ref|XP_003125632.1| PREDICTED: RNA-binding Raly-like protein-like [Sus scrofa].
Length = 88
Score = 139 bits (350), Expect = 4e-33
Identities = 66/86 (76%), Positives = 78/86 (90%)
Frame = +2
Query: 149 LSSKTMASNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFV 328
++ KT SNVTNK DP+S+NSRVFIGNLNT +VKK D+EAIFSKYGKIVGCSVHKG+AFV
Sbjct: 1 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 329 QYVNERNARAAVAGEDGRMIAGQVLD 406
QY++ER+ARAAVAGE+ R+IAGQ LD
Sbjct: 61 QYMSERHARAAVAGENARIIAGQPLD 86
>ref|XP_003360509.1| PREDICTED: heterogeneous nuclear ribonucleoprotein G-like 1 [Sus
scrofa].
Length = 390
Score = 50.8 bits (120), Expect = 2e-06
Identities = 29/88 (32%), Positives = 49/88 (55%), Gaps = 8/88 (9%)
Frame = +2
Query: 212 RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHK--------GFAFVQYVNERNARAAVA 367
++FIG LNT +K+ +EA+F KYG+IV + K GFAFV + + +A+ A
Sbjct: 9 KLFIGGLNTETNEKA-LEAVFGKYGRIVEVLLMKDRETNKSRGFAFVTFESPADAKDAAR 67
Query: 368 GEDGRMIAGQVLDINLAAEPKVNRGKAG 451
+G+ + G+ + + A +P G+ G
Sbjct: 68 DMNGKSLDGKAIKVEQATKPSFESGRRG 95
>ref|XP_003360508.1| PREDICTED: heterogeneous nuclear ribonucleoprotein G-like 1-like
[Sus scrofa].
Length = 390
Score = 50.8 bits (120), Expect = 2e-06
Identities = 29/88 (32%), Positives = 49/88 (55%), Gaps = 8/88 (9%)
Frame = +2
Query: 212 RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHK--------GFAFVQYVNERNARAAVA 367
++FIG LNT +K+ +EA+F KYG+IV + K GFAFV + + +A+ A
Sbjct: 9 KLFIGGLNTETNEKA-LEAVFGKYGRIVEVLLMKDRETNKSRGFAFVTFESPADAKDAAR 67
Query: 368 GEDGRMIAGQVLDINLAAEPKVNRGKAG 451
+G+ + G+ + + A +P G+ G
Sbjct: 68 DMNGKSLDGKAIKVEQATKPSFESGRRG 95
Database: RefSeq49_SP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 11,343,932
Number of sequences in database: 24,897
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24897
Number of Hits to DB: 27,666,843
Number of extensions: 680565
Number of successful extensions: 1781
Number of sequences better than 1.0e-05: 9
Number of HSP's gapped: 1752
Number of HSP's successfully gapped: 9
Length of query: 466
Length of database: 11,343,932
Length adjustment: 102
Effective length of query: 364
Effective length of database: 8,804,438
Effective search space: 3204815432
Effective search space used: 3204815432
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to Sscrofa10_2
BLASTN 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-007336
(1400 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gb|GL894341.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 636 e-180
Sscrofa_Chr17 113 3e-22
Sscrofa_Chr09 82 9e-13
>gb|GL894341.1| Sus scrofa unplaced genomic scaffold chrU_scaffold3015
Length = 65246
Score = 636 bits (321), Expect = e-180
Identities = 357/365 (97%), Gaps = 3/365 (0%)
Strand = Plus / Plus
Query: 998 cagctggagttgatcaaggatgatgaaaaagaggctgaggaaggaggggatgacagagac 1057
|||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 52525 cagctggagttgatcaaggatgatgaaaaagaggctgaggaaggagaggatgacagagac 52584
Query: 1058 agcgccaatggcgaggatgactcttaagcacatagtggggtttagaaatcttgtcccatt 1117
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 52585 agcgccaatggcgaggatgactcttaagcacatagtggggtttagaaatcttgtcccatt 52644
Query: 1118 atttctttacctaggcgcttgtctaagatcaaaattttcaccagatcctctcccctagta 1177
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 52645 atttctttacctaggcgcttgtctaagatcaaaattttcaccagatcctctcccctagta 52704
Query: 1178 tcttcagcacatgctcactgttctccccatccttgtccttcccatgttcattaattcata 1237
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 52705 tcttcagcacatgctcactgttctccccatccttgtccttcccatgttcattaattcata 52764
Query: 1238 ttgccctgcgcctagtcccattttcacttctttgacgctcctggtagttatgtaaagtcc 1297
||||||||||||||||||||||||||||||||||||||||||||||||||||| |||| |
Sbjct: 52765 ttgccctgcgcctagtcccattttcacttctttgacgctcctggtagttatgttaagt-c 52823
Query: 1298 ttaccctgtaatttttgcttttaaatttgaatacctctttatgaatttaccaataaaaag 1357
|||||||||||||||||||||||| |||| ||||||||||||| | ||| ||||||||||
Sbjct: 52824 ttaccctgtaatttttgcttttaattttg-atacctctttatg-acttaacaataaaaag 52881
Query: 1358 gatgt 1362
|||||
Sbjct: 52882 gatgt 52886
Score = 553 bits (279), Expect = e-155
Identities = 279/279 (100%)
Strand = Plus / Plus
Query: 126 gtttttcggctttgtgaattaccttatcatcaaagacaatggccagcaacgttaccaaca 185
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34019 gtttttcggctttgtgaattaccttatcatcaaagacaatggccagcaacgttaccaaca 34078
Query: 186 agacagatcctcgctccatgaattcccgtgtattcattgggaatctcaatactcttgtgg 245
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34079 agacagatcctcgctccatgaattcccgtgtattcattgggaatctcaatactcttgtgg 34138
Query: 246 tcaagaaatctgatgtggaggcaatcttctcaaaatatggcaaaatcgtgggttgctctg 305
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34139 tcaagaaatctgatgtggaggcaatcttctcaaaatatggcaaaatcgtgggttgctctg 34198
Query: 306 ttcataagggctttgccttcgttcagtacgttaatgagagaaatgctcgagctgctgttg 365
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34199 ttcataagggctttgccttcgttcagtacgttaatgagagaaatgctcgagctgctgttg 34258
Query: 366 caggagaggatggccgaatgattgctggccaggttttag 404
|||||||||||||||||||||||||||||||||||||||
Sbjct: 34259 caggagaggatggccgaatgattgctggccaggttttag 34297
Score = 317 bits (160), Expect = 9e-84
Identities = 160/160 (100%)
Strand = Plus / Plus
Query: 841 agagatgaagaatgataagtcagaagaggagcagagcagcagctcccagaagaaagatga 900
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 52269 agagatgaagaatgataagtcagaagaggagcagagcagcagctcccagaagaaagatga 52328
Query: 901 gactaatgtgaagatggagtctgaggggggtgcagatgactctgctgaggagggggacct 960
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 52329 gactaatgtgaagatggagtctgaggggggtgcagatgactctgctgaggagggggacct 52388
Query: 961 actggatgatgatgataatgaagatcggggggatgaccag 1000
||||||||||||||||||||||||||||||||||||||||
Sbjct: 52389 actggatgatgatgataatgaagatcggggggatgaccag 52428
Score = 311 bits (157), Expect = 6e-82
Identities = 163/165 (98%)
Strand = Plus / Plus
Query: 564 acaggatgtacagttacccagcacgtgttcctcctcctcctcctattgctcgggctgtag 623
|||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 51175 acaggatgaacagttacccagcacgtgttcctcctcctcctcctattgctcgggctgtag 51234
Query: 624 tgccctcaaaacgccagcgtgtatcagggaacacctcacgaaggggcaaaagtggcttca 683
|||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 51235 tgccctcaaaacgccagcgtgtatcaggaaacacctcacgaaggggcaaaagtggcttca 51294
Query: 684 attctaagagtggacagcggggatcatcttctaagtctggaaagt 728
|||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 51295 attctaagagtggacagcggggatcatcttctaagtctggaaagt 51339
Score = 232 bits (117), Expect = 4e-58
Identities = 117/117 (100%)
Strand = Plus / Plus
Query: 403 agatattaatctggctgcagagccaaaagtgaaccgaggaaaggcaggtgtgaaacgatc 462
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 38894 agatattaatctggctgcagagccaaaagtgaaccgaggaaaggcaggtgtgaaacgatc 38953
Query: 463 tgcagcggagatgtacgggtcagtaccagaacacccttctccgtcccctctactcag 519
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 38954 tgcagcggagatgtacgggtcagtaccagaacacccttctccgtcccctctactcag 39010
Score = 218 bits (110), Expect = 6e-54
Identities = 113/114 (99%)
Strand = Plus / Plus
Query: 729 taaaaggagatgacctccaggccattaagaaggagttgacccagataaaacaaaaagtgg 788
|||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 51907 taaaaggagatgaccttcaggccattaagaaggagttgacccagataaaacaaaaagtgg 51966
Query: 789 attctctactggaaagcctggaaaaaatcgaaaaggaacagagcaaacaaggag 842
||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 51967 attctctactggaaagcctggaaaaaatcgaaaaggaacagagcaaacaaggag 52020
Score = 105 bits (53), Expect = 6e-20
Identities = 53/53 (100%)
Strand = Plus / Plus
Query: 516 tcagctcctcttttgacttggactatgactttcaacgggattattatgacagg 568
|||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 39609 tcagctcctcttttgacttggactatgactttcaacgggattattatgacagg 39661
Score = 69.9 bits (35), Expect = 4e-09
Identities = 35/35 (100%)
Strand = Plus / Plus
Query: 1 tttgtgaagaggcgaagactgagcggttgcggcgg 35
|||||||||||||||||||||||||||||||||||
Sbjct: 4851 tttgtgaagaggcgaagactgagcggttgcggcgg 4885
>Sscrofa_Chr17
|| Length = 69701581
Score = 113 bits (57), Expect = 3e-22
Identities = 81/89 (91%)
Strand = Plus / Plus
Query: 1006 gttgatcaaggatgatgaaaaagaggctgaggaaggaggggatgacagagacagcgccaa 1065
|||||||||||||||||||||||||||||||||||||| |||||||||||| | |||||
Sbjct: 8422324 gttgatcaaggatgatgaaaaagaggctgaggaaggagaggatgacagagagggtgccaa 8422383
Query: 1066 tggcgaggatgactcttaagcacatagtg 1094
| ||||||||||||||||||| |||||
Sbjct: 8422384 cagtgaggatgactcttaagcacctagtg 8422412
>Sscrofa_Chr09
|| Length = 153670197
Score = 81.8 bits (41), Expect = 9e-13
Identities = 71/81 (87%)
Strand = Plus / Plus
Query: 1077 actcttaagcacatagtggggtttagaaatcttgtcccattatttctttacctaggcgct 1136
||||||||||||| || |||| |||||||||||||||| ||||||||||| || || ||
Sbjct: 118634479 actcttaagcacacaggggggcttagaaatcttgtcccgttatttctttatctgagcact 118634538
Query: 1137 tgtctaagatcaaaattttca 1157
|| || |||||||||||||||
Sbjct: 118634539 tgcctgagatcaaaattttca 118634559
Score = 77.8 bits (39), Expect = 1e-11
Identities = 57/63 (90%)
Strand = Plus / Plus
Query: 1172 ctagtatcttcagcacatgctcactgttctccccatccttgtccttcccatgttcattaa 1231
|||| ||||| |||||||||| |||||||||||||||||| ||||||||||| ||||||
Sbjct: 118634839 ctagaatctttagcacatgctttctgttctccccatccttgcccttcccatgtccattaa 118634898
Query: 1232 ttc 1234
|||
Sbjct: 118634899 ttc 118634901
Database: Sscrofa_10.2.fasta
Posted date: Nov 16, 2011 10:34 AM
Number of letters in database: 2,808,509,378
Number of sequences in database: 4582
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 4582
Number of Hits to DB: 43,767,289
Number of extensions: 406
Number of successful extensions: 406
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 405
Number of HSP's successfully gapped: 11
Length of query: 1400
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1379
Effective length of database: 2,808,413,156
Effective search space: 3872801742124
Effective search space used: 3872801742124
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)