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-003538
(893 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_001033650.1| RNA pseudouridylate synthase domain-containi... 382 e-106
Alignment gi|XP_002703537.1| PREDICTED: RNA pseudouridylate synthase doma... 86 3e-17
Alignment gi|NP_001015616.1| RNA pseudouridylate synthase domain-containi... 85 1e-16
>ref|NP_001033650.1| RNA pseudouridylate synthase domain-containing protein 3 [Bos
taurus].
Length = 344
Score = 382 bits (981), Expect = e-106
Identities = 196/254 (77%), Positives = 213/254 (83%)
Frame = +3
Query: 18 MGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQXXXXXXXXXXXXDKPFRRLLQP 197
MGG+RV GQ GG R+GLGI A AAGFGT+ARHQLQ D+PF LL+P
Sbjct: 1 MGGWRVLGQASGGWRRGLGIRATSTAAGFGTKARHQLQRRGASKPSDPPGDQPFPGLLRP 60
Query: 198 ENLSREELVDVLREAVVDQKGPLVTLNKPQGLPVTGKPGELTLVSVLPELSQCLGLGERE 377
SREELVDVLR AVVD KGPLVTLNKPQGLPVTGKPGELTL+SVLPELS+ LGLGE+E
Sbjct: 61 GTFSREELVDVLRAAVVDSKGPLVTLNKPQGLPVTGKPGELTLLSVLPELSRSLGLGEQE 120
Query: 378 LQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKIQ 557
+QVVRASGKE SGLVLLSSC QTASRLQKFFTHS+RARKPTATYCAVTDGIP SEGKIQ
Sbjct: 121 VQVVRASGKEASGLVLLSSCSQTASRLQKFFTHSRRARKPTATYCAVTDGIPVTSEGKIQ 180
Query: 558 AALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTAFPGQL 737
AALK+EH DG +LVVPV+SPSRKD ++GVK TLSHFRV+A+GSGCALVQLQPLT FP QL
Sbjct: 181 AALKLEHIDGVNLVVPVQSPSRKDIMEGVKRTLSHFRVVATGSGCALVQLQPLTVFPSQL 240
Query: 738 QVHMVLQLCPVPGD 779
Q HM LQLCPV GD
Sbjct: 241 QAHMALQLCPVLGD 254
>ref|XP_002703537.1| PREDICTED: RNA pseudouridylate synthase domain containing 4-like
[Bos taurus].
Length = 377
Score = 86.3 bits (212), Expect = 3e-17
Identities = 65/200 (32%), Positives = 100/200 (50%), Gaps = 13/200 (6%)
Frame = +3
Query: 219 LVDVLREAVVDQKGPLVTLNKPQGLPVTGKPG-ELTLVSVLPELSQCL-GLGERELQVVR 392
L L +V Q LV +NKP GLPV G PG +L + VLP L++ L G + L +
Sbjct: 91 LAKALSRGIVHQDKELVVINKPYGLPVHGGPGVKLCISDVLPVLAKILHGPKAKPLHLCH 150
Query: 393 ASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKIQAALKM 572
KET+G+++L+ + A ++Q+ F R R+ T Y A+T +P G + +
Sbjct: 151 RLDKETTGVMVLAWEKEVAHQVQELF----RTRQVTKKYWAITVRVPVPEAGVVDIPIVE 206
Query: 573 EHTDGASLVVPVK-SPS---------RKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTA 722
+ G + SPS R + + ++ +RVL+S AL++LQP+T
Sbjct: 207 KEAQGQQHHHKMTLSPSYRMDDGKMVRVRSSRNAQLAVTQYRVLSSSLSAALLELQPITG 266
Query: 723 FPGQLQVHMVLQL-CPVPGD 779
QL+VHM L CP+ GD
Sbjct: 267 IKHQLRVHMSFGLDCPILGD 286
>ref|NP_001015616.1| RNA pseudouridylate synthase domain-containing protein 4 [Bos
taurus].
Length = 377
Score = 84.7 bits (208), Expect = 1e-16
Identities = 64/200 (32%), Positives = 100/200 (50%), Gaps = 13/200 (6%)
Frame = +3
Query: 219 LVDVLREAVVDQKGPLVTLNKPQGLPVTGKPG-ELTLVSVLPELSQCL-GLGERELQVVR 392
L L +V Q LV +NKP GLPV G PG +L + VLP L++ L G + L +
Sbjct: 91 LAKALSRGIVHQDKELVVINKPYGLPVHGGPGVKLCISDVLPVLAKILHGPKAKPLHLCH 150
Query: 393 ASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKIQAALKM 572
KET+G+++L+ + A ++Q+ F R R+ T Y A+T +P G + +
Sbjct: 151 RLDKETTGVMVLAWEKEVAHQVQELF----RTRQVTKKYWAITVRVPVPEAGVVDIPIVE 206
Query: 573 EHTDGASLVVPVK-SPS---------RKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTA 722
+ G + SPS R + + ++ ++VL+S AL++LQP+T
Sbjct: 207 KEAQGQQHHHKMTLSPSYRMDDGKMVRVRSSRNAQLAVTQYQVLSSSLSAALLELQPITG 266
Query: 723 FPGQLQVHMVLQL-CPVPGD 779
QL+VHM L CP+ GD
Sbjct: 267 IKHQLRVHMSFGLDCPILGD 286
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: 40,661,239
Number of extensions: 1322304
Number of successful extensions: 6478
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 6439
Number of HSP's successfully gapped: 3
Length of query: 297
Length of database: 17,681,374
Length adjustment: 102
Effective length of query: 195
Effective length of database: 14,306,398
Effective search space: 2789747610
Effective search space used: 2789747610
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: 34 (17.7 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-003538
(893 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_541778.2| PREDICTED: similar to RNA pseudouridylate synth... 370 e-103
Alignment gi|XP_546413.2| PREDICTED: similar to RNA pseudouridylate synth... 84 2e-16
>ref|XP_541778.2| PREDICTED: similar to RNA pseudouridylate synthase domain
containing 3 [Canis familiaris].
Length = 404
Score = 370 bits (951), Expect = e-103
Identities = 192/255 (75%), Positives = 208/255 (81%)
Frame = +3
Query: 15 EMGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQXXXXXXXXXXXXDKPFRRLLQ 194
EMGG RV GQVWGG R+G G+ +AAG GTEARHQL+ D+PF LLQ
Sbjct: 60 EMGGCRVLGQVWGGWRRGPGVRTASRAAGSGTEARHQLRHRGSSKRSGPLGDQPFPGLLQ 119
Query: 195 PENLSREELVDVLREAVVDQKGPLVTLNKPQGLPVTGKPGELTLVSVLPELSQCLGLGER 374
E+LSRE LVD LR AVVDQKGPLVTLNKP GLPVTGKPGELTL SVLPELSQ LGL +R
Sbjct: 120 LEHLSREGLVDALRAAVVDQKGPLVTLNKPPGLPVTGKPGELTLFSVLPELSQSLGLRDR 179
Query: 375 ELQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKI 554
EL VV+ASGKETSGLVLLSSCPQTAS LQKFF +S+RAR+PTATY A+TDGIPA SEG I
Sbjct: 180 ELHVVQASGKETSGLVLLSSCPQTASHLQKFFIYSRRARRPTATYWAITDGIPATSEGNI 239
Query: 555 QAALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTAFPGQ 734
QAALK+EH DG LV+PVKSPSRKDF +GVK TLSHF V+A GSGCALVQLQPLT FP Q
Sbjct: 240 QAALKLEHIDGVDLVIPVKSPSRKDFQEGVKRTLSHFHVVAMGSGCALVQLQPLTVFPSQ 299
Query: 735 LQVHMVLQLCPVPGD 779
LQVHMVLQLCPV GD
Sbjct: 300 LQVHMVLQLCPVLGD 314
>ref|XP_546413.2| PREDICTED: similar to RNA pseudouridylate synthase domain
containing 4 [Canis familiaris].
Length = 404
Score = 83.6 bits (205), Expect = 2e-16
Identities = 66/200 (33%), Positives = 100/200 (50%), Gaps = 13/200 (6%)
Frame = +3
Query: 219 LVDVLREAVVDQKGPLVTLNKPQGLPVTGKPG-ELTLVSVLPELSQCL-GLGERELQVVR 392
L L V+ Q LV +NKP GLPV G PG +L + VLP L++ L G L +
Sbjct: 92 LAKALSRGVLHQDKDLVVINKPYGLPVHGGPGVQLCISDVLPILAKMLHGHKAEPLHLCH 151
Query: 393 ASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKIQAALKM 572
KET+G+++L+ + A ++Q+FF Q A+K Y A+T +P S G + +
Sbjct: 152 RLDKETTGVMVLAWEKEVAHQVQEFFRTRQVAKK----YWAITVRVPVPSAGVVDIPITE 207
Query: 573 EHTDGAS--LVVPVKSPSRKDFLKGVK--------WTLSHFRVLASGSGCALVQLQPLTA 722
+ G + + R D K V+ ++ + VL+S ALV+LQP+T
Sbjct: 208 KAVQGQQQHYKMTLSPDYRMDNGKMVRVRSNRNAHIAVTQYHVLSSTLSSALVELQPITG 267
Query: 723 FPGQLQVHMVLQL-CPVPGD 779
QL+VH+ L CP+ GD
Sbjct: 268 IKHQLRVHLSFGLNCPILGD 287
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: 42,108,652
Number of extensions: 1344887
Number of successful extensions: 6568
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 6558
Number of HSP's successfully gapped: 2
Length of query: 297
Length of database: 18,874,504
Length adjustment: 102
Effective length of query: 195
Effective length of database: 15,474,232
Effective search space: 3017475240
Effective search space used: 3017475240
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: 34 (17.7 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-003538
(893 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_775930.2| RNA pseudouridylate synthase domain-containing ... 382 e-106
Alignment gi|NP_001136019.1| RNA pseudouridylate synthase domain-containi... 342 4e-94
Alignment gi|NP_116184.2| RNA pseudouridylate synthase domain-containing ... 82 9e-16
Alignment gi|NP_001138299.1| RNA pseudouridylate synthase domain-containi... 79 6e-15
>ref|NP_775930.2| RNA pseudouridylate synthase domain-containing protein 3 isoform 1
[Homo sapiens].
Length = 351
Score = 382 bits (981), Expect = e-106
Identities = 197/259 (76%), Positives = 218/259 (84%)
Frame = +3
Query: 3 ILTPEMGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQXXXXXXXXXXXXDKPFR 182
+L EM G RV G+ W G R+GLG+ VP+ AGFGTEARHQ Q D+PF
Sbjct: 4 VLAREMDGRRVLGRFWSGWRRGLGVRPVPEDAGFGTEARHQRQPRGSCQRSGPLGDQPFA 63
Query: 183 RLLQPENLSREELVDVLREAVVDQKGPLVTLNKPQGLPVTGKPGELTLVSVLPELSQCLG 362
LL P+NLSREELVD LR AVVD+KGPLVTLNKPQGLPVTGKPGELTL SVLPELSQ LG
Sbjct: 64 GLL-PKNLSREELVDALRAAVVDRKGPLVTLNKPQGLPVTGKPGELTLFSVLPELSQSLG 122
Query: 363 LGERELQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAAS 542
L E+ELQVVRASGKE+SGLVLLSSCPQTASRLQK+FTH++RA++PTATYCAVTDGIPAAS
Sbjct: 123 LREQELQVVRASGKESSGLVLLSSCPQTASRLQKYFTHARRAQRPTATYCAVTDGIPAAS 182
Query: 543 EGKIQAALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTA 722
EGKIQAALK+EH DG +L VPVK+PSRKD L+GVK TLSHFRV+A+GSGCALVQLQPLT
Sbjct: 183 EGKIQAALKLEHIDGVNLTVPVKAPSRKDILEGVKKTLSHFRVVATGSGCALVQLQPLTV 242
Query: 723 FPGQLQVHMVLQLCPVPGD 779
F QLQVHMVLQLCPV GD
Sbjct: 243 FSSQLQVHMVLQLCPVLGD 261
>ref|NP_001136019.1| RNA pseudouridylate synthase domain-containing protein 3 isoform 2
[Homo sapiens].
Length = 336
Score = 342 bits (876), Expect = 4e-94
Identities = 182/259 (70%), Positives = 203/259 (78%)
Frame = +3
Query: 3 ILTPEMGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQXXXXXXXXXXXXDKPFR 182
+L EM G RV G+ W G R+GLG+ VP+ AGFGTEARHQ Q D+PF
Sbjct: 4 VLAREMDGRRVLGRFWSGWRRGLGVRPVPEDAGFGTEARHQRQPRGSCQRSGPLGDQPFA 63
Query: 183 RLLQPENLSREELVDVLREAVVDQKGPLVTLNKPQGLPVTGKPGELTLVSVLPELSQCLG 362
LL P+NLSREELVD LR AVVD+KG KPGELTL SVLPELSQ LG
Sbjct: 64 GLL-PKNLSREELVDALRAAVVDRKG---------------KPGELTLFSVLPELSQSLG 107
Query: 363 LGERELQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAAS 542
L E+ELQVVRASGKE+SGLVLLSSCPQTASRLQK+FTH++RA++PTATYCAVTDGIPAAS
Sbjct: 108 LREQELQVVRASGKESSGLVLLSSCPQTASRLQKYFTHARRAQRPTATYCAVTDGIPAAS 167
Query: 543 EGKIQAALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTA 722
EGKIQAALK+EH DG +L VPVK+PSRKD L+GVK TLSHFRV+A+GSGCALVQLQPLT
Sbjct: 168 EGKIQAALKLEHIDGVNLTVPVKAPSRKDILEGVKKTLSHFRVVATGSGCALVQLQPLTV 227
Query: 723 FPGQLQVHMVLQLCPVPGD 779
F QLQVHMVLQLCPV GD
Sbjct: 228 FSSQLQVHMVLQLCPVLGD 246
>ref|NP_116184.2| RNA pseudouridylate synthase domain-containing protein 4 isoform a
[Homo sapiens].
Length = 377
Score = 81.6 bits (200), Expect = 9e-16
Identities = 67/200 (33%), Positives = 100/200 (50%), Gaps = 13/200 (6%)
Frame = +3
Query: 219 LVDVLREAVVDQKGPLVTLNKPQGLPVTGKPG-ELTLVSVLPELSQCL-GLGERELQVVR 392
L L ++ Q LV +NKP GLPV G PG +L + VLP L++ L G L +
Sbjct: 91 LAKALTRGILHQDKNLVVINKPYGLPVHGGPGVQLCITDVLPILAKMLHGHKAEPLHLCH 150
Query: 393 ASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKIQAALKM 572
KET+G+++L+ A ++Q+ F R R+ Y A+T +P S G + +
Sbjct: 151 RLDKETTGVMVLAWDKDMAHQVQELF----RTRQVVKKYWAITVHVPMPSAGVVDIPIVE 206
Query: 573 EHTDGASLVVPVK-SPS-RKDFLKGVK--------WTLSHFRVLASGSGCALVQLQPLTA 722
+ G + SPS R D K VK ++ ++VL+S ALV+LQP+T
Sbjct: 207 KEAQGQQQHHKMTLSPSYRMDDGKMVKVRRSRNAQVAVTQYQVLSSTLSSALVELQPITG 266
Query: 723 FPGQLQVHMVLQL-CPVPGD 779
QL+VH+ L CP+ GD
Sbjct: 267 IKHQLRVHLSFGLDCPILGD 286
>ref|NP_001138299.1| RNA pseudouridylate synthase domain-containing protein 4 isoform b
[Homo sapiens].
Length = 346
Score = 79.0 bits (193), Expect = 6e-15
Identities = 60/190 (31%), Positives = 93/190 (48%), Gaps = 3/190 (1%)
Frame = +3
Query: 219 LVDVLREAVVDQKGPLVTLNKPQGLPVTGKPG-ELTLVSVLPELSQCL-GLGERELQVVR 392
L L ++ Q LV +NKP GLPV G PG +L + VLP L++ L G L +
Sbjct: 91 LAKALTRGILHQDKNLVVINKPYGLPVHGGPGVQLCITDVLPILAKMLHGHKAEPLHLCH 150
Query: 393 ASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKIQAALKM 572
KET+G+++L+ A ++Q+ F R R+ Y A+T +P S G +
Sbjct: 151 RLDKETTGVMVLAWDKDMAHQVQELF----RTRQVVKKYWAITVHVPMPSAGVVD----- 201
Query: 573 EHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTAFPGQLQVHMV 752
+P+ K + ++ ++VL+S ALV+LQP+T QL+VH+
Sbjct: 202 ---------IPIVE-------KEAQVAVTQYQVLSSTLSSALVELQPITGIKHQLRVHLS 245
Query: 753 LQL-CPVPGD 779
L CP+ GD
Sbjct: 246 FGLDCPILGD 255
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: 41,495,309
Number of extensions: 1325733
Number of successful extensions: 6338
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 6313
Number of HSP's successfully gapped: 4
Length of query: 297
Length of database: 18,297,164
Length adjustment: 102
Effective length of query: 195
Effective length of database: 14,934,836
Effective search space: 2912293020
Effective search space used: 2912293020
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: 34 (17.7 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-003538
(893 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_001028376.1| RNA pseudouridylate synthase domain-containi... 320 1e-87
Alignment gi|NP_082316.1| RNA pseudouridylate synthase domain-containing ... 85 7e-17
>ref|NP_001028376.1| RNA pseudouridylate synthase domain-containing protein 3 [Mus
musculus].
Length = 344
Score = 320 bits (819), Expect = 1e-87
Identities = 171/254 (67%), Positives = 187/254 (73%)
Frame = +3
Query: 18 MGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQXXXXXXXXXXXXDKPFRRLLQP 197
MG RV V R LG CA + AGFGTEAR Q D+PF LL+
Sbjct: 1 MGALRVLRYVSMIWRPELGSCARQRDAGFGTEARRPSQPHRSSKHKDLVEDQPFPGLLRT 60
Query: 198 ENLSREELVDVLREAVVDQKGPLVTLNKPQGLPVTGKPGELTLVSVLPELSQCLGLGERE 377
ENL EEL VLR AVVDQKGPLVTLNKPQGLPVTG+PGELTL+SVLP+LSQ LGL +E
Sbjct: 61 ENLGLEELAHVLRAAVVDQKGPLVTLNKPQGLPVTGRPGELTLLSVLPQLSQALGLEHQE 120
Query: 378 LQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKIQ 557
LQVVRA GKE SGLVLLSSCPQTASRLQKFF HS+RA++PTATYCAVTDGIP SEG +
Sbjct: 121 LQVVRAPGKEASGLVLLSSCPQTASRLQKFFIHSRRAQRPTATYCAVTDGIPEPSEGTVC 180
Query: 558 AALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTAFPGQL 737
LKME + L VPV SPSRKD +GVK TLS F V+A+G GCALVQLQPLT FP QL
Sbjct: 181 MPLKMEQMNDVDLAVPVMSPSRKDIQEGVKRTLSRFHVMATGRGCALVQLQPLTVFPNQL 240
Query: 738 QVHMVLQLCPVPGD 779
QVHM LQLCP+ GD
Sbjct: 241 QVHMALQLCPILGD 254
>ref|NP_082316.1| RNA pseudouridylate synthase domain-containing protein 4 [Mus
musculus].
Length = 377
Score = 85.1 bits (209), Expect = 7e-17
Identities = 70/200 (35%), Positives = 101/200 (50%), Gaps = 13/200 (6%)
Frame = +3
Query: 219 LVDVLREAVVDQKGPLVTLNKPQGLPVTGKPG-ELTLVSVLPELSQCL-GLGERELQVVR 392
L L ++ Q LV +NKP GLPV G PG +L + VLP L++ L G L +
Sbjct: 91 LAKELSRRILHQDNDLVVINKPYGLPVHGGPGVQLCISDVLPILAKMLHGHKAEPLHLCH 150
Query: 393 ASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKIQAALKM 572
KET+G+++L+ A ++Q+ F R R+ Y A+T +P S G + +K
Sbjct: 151 RLDKETTGVMVLAWEKDMAHQVQELF----RTRQVEKKYWAITVRVPLPSAGVVDIPIKE 206
Query: 573 EHTDGASLVVPVK-SPS-RKDFLKGVKWTLSH--------FRVLASGSGCALVQLQPLTA 722
+ G + SPS R D K VK S ++VL+S S ALV+LQP+T
Sbjct: 207 KEVQGPQQHHKMTLSPSYRLDNGKMVKVRASRDAHVAVTQYQVLSSASSSALVELQPVTG 266
Query: 723 FPGQLQVHMVLQL-CPVPGD 779
QL+VH+ L CP+ GD
Sbjct: 267 IKHQLRVHLSFGLDCPILGD 286
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: 34,974,255
Number of extensions: 1098333
Number of successful extensions: 4986
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 4963
Number of HSP's successfully gapped: 2
Length of query: 297
Length of database: 15,617,559
Length adjustment: 101
Effective length of query: 196
Effective length of database: 12,583,923
Effective search space: 2466448908
Effective search space used: 2466448908
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: 34 (17.7 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-003538
(893 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|XP_001928432.1| PREDICTED: RNA pseudouridylate synthase doma... 488 e-138
Alignment gi|XP_003132405.1| PREDICTED: RNA pseudouridylate synthase doma... 448 e-126
Alignment gi|XP_003130110.1| PREDICTED: RNA pseudouridylate synthase doma... 80 2e-15
Alignment gi|XP_003130109.1| PREDICTED: RNA pseudouridylate synthase doma... 79 4e-15
>ref|XP_001928432.1| PREDICTED: RNA pseudouridylate synthase domain-containing protein 3
isoform 1 [Sus scrofa].
Length = 352
Score = 488 bits (1257), Expect = e-138
Identities = 246/265 (92%), Positives = 246/265 (92%)
Frame = +3
Query: 3 ILTPEMGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQXXXXXXXXXXXXDKPFR 182
ILTPEMGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQ DKPFR
Sbjct: 4 ILTPEMGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQSRGSSKRLGSLGDKPFR 63
Query: 183 RLLQPENLSREELVDVLREAVVDQKGPLVTLNKPQGLPVTGKPGELTLVSVLPELSQCLG 362
RLLQPENLSREELVDVLREAVVDQKGPLVTLNKPQGLPVTGKPGELTLVSVLPELSQCLG
Sbjct: 64 RLLQPENLSREELVDVLREAVVDQKGPLVTLNKPQGLPVTGKPGELTLVSVLPELSQCLG 123
Query: 363 LGERELQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAAS 542
LGERELQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAAS
Sbjct: 124 LGERELQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAAS 183
Query: 543 EGKIQAALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTA 722
EGKIQAALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTA
Sbjct: 184 EGKIQAALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTA 243
Query: 723 FPGQLQVHMVLQLCPVPGDSVLCLC 797
FP QLQVHMVLQLCPV GD C
Sbjct: 244 FPSQLQVHMVLQLCPVLGDHKYSAC 268
>ref|XP_003132405.1| PREDICTED: RNA pseudouridylate synthase domain-containing protein 3
isoform 2 [Sus scrofa].
Length = 337
Score = 448 bits (1152), Expect = e-126
Identities = 231/265 (87%), Positives = 231/265 (87%)
Frame = +3
Query: 3 ILTPEMGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQXXXXXXXXXXXXDKPFR 182
ILTPEMGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQ DKPFR
Sbjct: 4 ILTPEMGGYRVWGQVWGGCRQGLGICAVPKAAGFGTEARHQLQSRGSSKRLGSLGDKPFR 63
Query: 183 RLLQPENLSREELVDVLREAVVDQKGPLVTLNKPQGLPVTGKPGELTLVSVLPELSQCLG 362
RLLQPENLSREELVDVLREAVVDQKG KPGELTLVSVLPELSQCLG
Sbjct: 64 RLLQPENLSREELVDVLREAVVDQKG---------------KPGELTLVSVLPELSQCLG 108
Query: 363 LGERELQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAAS 542
LGERELQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAAS
Sbjct: 109 LGERELQVVRASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAAS 168
Query: 543 EGKIQAALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTA 722
EGKIQAALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTA
Sbjct: 169 EGKIQAALKMEHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTA 228
Query: 723 FPGQLQVHMVLQLCPVPGDSVLCLC 797
FP QLQVHMVLQLCPV GD C
Sbjct: 229 FPSQLQVHMVLQLCPVLGDHKYSAC 253
>ref|XP_003130110.1| PREDICTED: RNA pseudouridylate synthase domain-containing protein
4-like isoform 2 [Sus scrofa].
Length = 345
Score = 80.1 bits (196), Expect = 2e-15
Identities = 61/190 (32%), Positives = 96/190 (50%), Gaps = 3/190 (1%)
Frame = +3
Query: 219 LVDVLREAVVDQKGPLVTLNKPQGLPVTGKPG-ELTLVSVLPELSQCL-GLGERELQVVR 392
L L +V Q L+ +NKP GLPV G PG +L + VLP L++ L G L +
Sbjct: 90 LAKALSRGIVHQDKDLLVINKPYGLPVHGGPGVQLCISDVLPILAKILHGHKAEPLHLCH 149
Query: 393 ASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKIQAALKM 572
KET+G+++L+ + A ++Q+ F Q A+K Y A+T +P S G +
Sbjct: 150 RLDKETTGVMVLAWEKEVAHQVQELFRTRQVAKK----YWAITVRVPVPSAGVVD----- 200
Query: 573 EHTDGASLVVPVKSPSRKDFLKGVKWTLSHFRVLASGSGCALVQLQPLTAFPGQLQVHMV 752
+P+ K V+ ++ ++VL+S AL++LQP+T QL+VH+
Sbjct: 201 ---------IPI-------IEKEVQVAVTQYQVLSSTLSSALLELQPVTGIKHQLRVHLS 244
Query: 753 LQL-CPVPGD 779
L CP+ GD
Sbjct: 245 FGLDCPILGD 254
>ref|XP_003130109.1| PREDICTED: RNA pseudouridylate synthase domain-containing protein
4-like isoform 1 [Sus scrofa].
Length = 376
Score = 78.6 bits (192), Expect = 4e-15
Identities = 63/200 (31%), Positives = 100/200 (50%), Gaps = 13/200 (6%)
Frame = +3
Query: 219 LVDVLREAVVDQKGPLVTLNKPQGLPVTGKPG-ELTLVSVLPELSQCL-GLGERELQVVR 392
L L +V Q L+ +NKP GLPV G PG +L + VLP L++ L G L +
Sbjct: 90 LAKALSRGIVHQDKDLLVINKPYGLPVHGGPGVQLCISDVLPILAKILHGHKAEPLHLCH 149
Query: 393 ASGKETSGLVLLSSCPQTASRLQKFFTHSQRARKPTATYCAVTDGIPAASEGKIQAALKM 572
KET+G+++L+ + A ++Q+ F Q A+K Y A+T +P S G + +
Sbjct: 150 RLDKETTGVMVLAWEKEVAHQVQELFRTRQVAKK----YWAITVRVPVPSAGVVDIPIIE 205
Query: 573 EHTDGASL--VVPVKSPSRKDFLKGVK--------WTLSHFRVLASGSGCALVQLQPLTA 722
+ G + + R D K V+ ++ ++VL+S AL++LQP+T
Sbjct: 206 KEVQGQQQHHKMTLCPSYRMDNGKMVRVRTSRNAHLAVTQYQVLSSTLSSALLELQPVTG 265
Query: 723 FPGQLQVHMVLQL-CPVPGD 779
QL+VH+ L CP+ GD
Sbjct: 266 IKHQLRVHLSFGLDCPILGD 285
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: 26,238,807
Number of extensions: 852074
Number of successful extensions: 4196
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 4163
Number of HSP's successfully gapped: 4
Length of query: 297
Length of database: 11,343,932
Length adjustment: 98
Effective length of query: 199
Effective length of database: 8,904,026
Effective search space: 1771901174
Effective search space used: 1771901174
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: 33 (17.3 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-003538
(893 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Sscrofa_Chr13 283 8e-74
>Sscrofa_Chr13
|| Length = 218635234
Score = 283 bits (143), Expect = 8e-74
Identities = 143/143 (100%)
Strand = Plus / Minus
Query: 117 aggcatcagctgcaatcccgaggttctagcaaacggttgggctccttgggtgacaaacct 176
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73209278 aggcatcagctgcaatcccgaggttctagcaaacggttgggctccttgggtgacaaacct 73209219
Query: 177 ttccggaggctgctgcagccagagaatctcagtcgggaagagctggttgatgtactgagg 236
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73209218 ttccggaggctgctgcagccagagaatctcagtcgggaagagctggttgatgtactgagg 73209159
Query: 237 gaggctgtggtggaccagaaagg 259
|||||||||||||||||||||||
Sbjct: 73209158 gaggctgtggtggaccagaaagg 73209136
Score = 246 bits (124), Expect = 2e-62
Identities = 124/124 (100%)
Strand = Plus / Minus
Query: 597 gtagttcccgtgaagtctccatccagaaaggacttcttgaaaggtgtcaagtggaccctc 656
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73206234 gtagttcccgtgaagtctccatccagaaaggacttcttgaaaggtgtcaagtggaccctc 73206175
Query: 657 agccacttccgtgtgctggcctcaggctctggctgtgccctggtccagctacagccactg 716
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73206174 agccacttccgtgtgctggcctcaggctctggctgtgccctggtccagctacagccactg 73206115
Query: 717 acag 720
||||
Sbjct: 73206114 acag 73206111
Score = 236 bits (119), Expect = 2e-59
Identities = 119/119 (100%)
Strand = Plus / Minus
Query: 1 ctatcctcacaccggagatgggtggctaccgtgtctggggccaggtctggggcggctgtc 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73209689 ctatcctcacaccggagatgggtggctaccgtgtctggggccaggtctggggcggctgtc 73209630
Query: 61 ggcagggtctggggatctgcgcagtgcccaaggccgcaggctttggcaccgaggccagg 119
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73209629 ggcagggtctggggatctgcgcagtgcccaaggccgcaggctttggcaccgaggccagg 73209571
Score = 214 bits (108), Expect = 6e-53
Identities = 108/108 (100%)
Strand = Plus / Minus
Query: 404 ggagacctctgggcttgtactcctctccagttgtccccagacagcaagccgtctccagaa 463
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73206722 ggagacctctgggcttgtactcctctccagttgtccccagacagcaagccgtctccagaa 73206663
Query: 464 gttcttcacccattcacagagagccaggaaacccacagccacctactg 511
||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73206662 gttcttcacccattcacagagagccaggaaacccacagccacctactg 73206615
Score = 206 bits (104), Expect = 2e-50
Identities = 104/104 (100%)
Strand = Plus / Minus
Query: 301 caggaaaaccaggggagctgacgttggtctcagtgcttccagagttgagccagtgcctgg 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73207538 caggaaaaccaggggagctgacgttggtctcagtgcttccagagttgagccagtgcctgg 73207479
Query: 361 ggctcggggaacgggagctccaggttgtccgagcatctgggaag 404
||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73207478 ggctcggggaacgggagctccaggttgtccgagcatctgggaag 73207435
Score = 174 bits (88), Expect = 5e-41
Identities = 88/88 (100%)
Strand = Plus / Minus
Query: 511 gtgctgtcactgatgggatcccagctgcttctgaggggaagatccaggcagctctgaaaa 570
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73206534 gtgctgtcactgatgggatcccagctgcttctgaggggaagatccaggcagctctgaaaa 73206475
Query: 571 tggaacacactgatggggccagtcttgt 598
||||||||||||||||||||||||||||
Sbjct: 73206474 tggaacacactgatggggccagtcttgt 73206447
Score = 127 bits (64), Expect = 1e-26
Identities = 88/95 (92%), Gaps = 2/95 (2%)
Strand = Plus / Minus
Query: 719 agcgttccccggccagctacaggtgcacatggtcctacagctctgccctgtgcccgggga 778
|||||||||| |||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 73203489 agcgttccccagccagctacaggtgcacatggtcctacagctctgccctgtgctcgggga 73203430
Query: 779 --ttcagtactctgcctgtgtgggcacagtcctgg 811
||||||||||||||||||||||||||||||
Sbjct: 73203429 ccacaagtactctgcctgtgtgggcacagtcctgg 73203395
Score = 95.6 bits (48), Expect = 4e-17
Identities = 48/48 (100%)
Strand = Plus / Minus
Query: 257 aggacctctggtgacgttgaacaagccacagggtctgccagtgacagg 304
||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73207725 aggacctctggtgacgttgaacaagccacagggtctgccagtgacagg 73207678
Score = 89.7 bits (45), Expect = 2e-15
Identities = 78/85 (91%), Gaps = 3/85 (3%)
Strand = Plus / Minus
Query: 812 ttctcagtgtgcccctgccacctggcccca-caactttcctagaaactgacctgtgggta 870
||||||||||||||| | | |||||||||| |||||||||||||| ||||||||||||||
Sbjct: 73198326 ttctcagtgtgccccaggctcctggccccagcaactttcctagaagctgacctgtgggta 73198267
Query: 871 a-ggttcccgagtcc-tgccttccc 893
| ||||||||||||| |||||||||
Sbjct: 73198266 agggttcccgagtccttgccttccc 73198242
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: 26,896,736
Number of extensions: 236
Number of successful extensions: 236
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 235
Number of HSP's successfully gapped: 10
Length of query: 893
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 872
Effective length of database: 2,808,413,156
Effective search space: 2448936272032
Effective search space used: 2448936272032
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 29 (58.0 bits)