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-003499
(1178 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_001069089.1| splicing factor, arginine/serine-rich 11 [Bo... 85 1e-16
Alignment gi|NP_001193066.1| splicing regulatory glutamine/lysine-rich pr... 57 2e-08
>ref|NP_001069089.1| splicing factor, arginine/serine-rich 11 [Bos taurus].
Length = 482
Score = 85.1 bits (209), Expect = 1e-16
Identities = 45/67 (67%), Positives = 47/67 (70%)
Frame = +1
Query: 280 MSNTTVVPSTXXXXXXXXXXXXXXXXXXXXTEVIQVTNVSPSASSEQMRTLFGFLGKIDE 459
MSNTT+VPST TEVIQVTNVSPSASSEQMRTLFGFLGKIDE
Sbjct: 1 MSNTTIVPSTAGPGPSGGPGGGGGGGGGGGTEVIQVTNVSPSASSEQMRTLFGFLGKIDE 60
Query: 460 LRLFPPE 480
LRLFPP+
Sbjct: 61 LRLFPPD 67
>ref|NP_001193066.1| splicing regulatory glutamine/lysine-rich protein 1 [Bos taurus].
Length = 632
Score = 57.4 bits (137), Expect = 2e-08
Identities = 26/37 (70%), Positives = 33/37 (89%)
Frame = +1
Query: 370 TEVIQVTNVSPSASSEQMRTLFGFLGKIDELRLFPPE 480
T VIQVTN+S + +SEQMRTLF FLG+I+ELRL+PP+
Sbjct: 18 TAVIQVTNLSSAVTSEQMRTLFSFLGEIEELRLYPPD 54
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: 32,172,233
Number of extensions: 775932
Number of successful extensions: 1628
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 1623
Number of HSP's successfully gapped: 2
Length of query: 392
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 288
Effective length of database: 14,240,222
Effective search space: 4101183936
Effective search space used: 4101183936
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-003499
(1178 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
***** No hits found ******
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: 33,174,797
Number of extensions: 727810
Number of successful extensions: 1713
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 1711
Number of HSP's successfully gapped: 0
Length of query: 392
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 287
Effective length of database: 15,374,224
Effective search space: 4412402288
Effective search space used: 4412402288
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 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-003499
(1178 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_001177916.1| serine/arginine-rich splicing factor 11 isof... 81 2e-15
Alignment gi|NP_004759.1| serine/arginine-rich splicing factor 11 isoform... 81 2e-15
Alignment gi|NP_001070667.1| splicing regulatory glutamine/lysine-rich pr... 58 2e-08
>ref|NP_001177916.1| serine/arginine-rich splicing factor 11 isoform 2 [Homo sapiens].
Length = 483
Score = 80.9 bits (198), Expect = 2e-15
Identities = 46/68 (67%), Positives = 47/68 (69%), Gaps = 1/68 (1%)
Frame = +1
Query: 280 MSNTTVVPSTXXXXXXXXXXXXXXXXXXXX-TEVIQVTNVSPSASSEQMRTLFGFLGKID 456
MSNTTVVPST TEVIQVTNVSPSASSEQMRTLFGFLGKID
Sbjct: 1 MSNTTVVPSTAGPGPSGGPGGGGGGGGGGGGTEVIQVTNVSPSASSEQMRTLFGFLGKID 60
Query: 457 ELRLFPPE 480
ELRLFPP+
Sbjct: 61 ELRLFPPD 68
>ref|NP_004759.1| serine/arginine-rich splicing factor 11 isoform 1 [Homo sapiens].
Length = 484
Score = 80.9 bits (198), Expect = 2e-15
Identities = 46/68 (67%), Positives = 47/68 (69%), Gaps = 1/68 (1%)
Frame = +1
Query: 280 MSNTTVVPSTXXXXXXXXXXXXXXXXXXXX-TEVIQVTNVSPSASSEQMRTLFGFLGKID 456
MSNTTVVPST TEVIQVTNVSPSASSEQMRTLFGFLGKID
Sbjct: 1 MSNTTVVPSTAGPGPSGGPGGGGGGGGGGGGTEVIQVTNVSPSASSEQMRTLFGFLGKID 60
Query: 457 ELRLFPPE 480
ELRLFPP+
Sbjct: 61 ELRLFPPD 68
>ref|NP_001070667.1| splicing regulatory glutamine/lysine-rich protein 1 isoform a [Homo
sapiens].
Length = 624
Score = 57.8 bits (138), Expect = 2e-08
Identities = 26/37 (70%), Positives = 33/37 (89%)
Frame = +1
Query: 370 TEVIQVTNVSPSASSEQMRTLFGFLGKIDELRLFPPE 480
T VIQVTN+S + +SEQMRTLF FLG+I+ELRL+PP+
Sbjct: 18 TSVIQVTNLSSAVTSEQMRTLFSFLGEIEELRLYPPD 54
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: 32,479,649
Number of extensions: 706328
Number of successful extensions: 1691
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 1687
Number of HSP's successfully gapped: 3
Length of query: 392
Length of database: 18,297,164
Length adjustment: 105
Effective length of query: 287
Effective length of database: 14,835,944
Effective search space: 4257915928
Effective search space used: 4257915928
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 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-003499
(1178 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_001087221.1| splicing factor, arginine/serine-rich 11 iso... 81 1e-15
Alignment gi|NP_001087222.1| splicing factor, arginine/serine-rich 11 iso... 75 8e-14
>ref|NP_001087221.1| splicing factor, arginine/serine-rich 11 isoform 2 [Mus musculus].
Length = 511
Score = 81.3 bits (199), Expect = 1e-15
Identities = 51/93 (54%), Positives = 59/93 (63%)
Frame = +1
Query: 202 GSSSPSLSLFVVCLMC*SRSENASSAMSNTTVVPSTXXXXXXXXXXXXXXXXXXXXTEVI 381
G +SPS++L + L + A+ AMS+T VVPS TEVI
Sbjct: 11 GPTSPSVALTNLALRR-NFFREAARAMSSTAVVPSAPGPGPGPSGGPGGG------TEVI 63
Query: 382 QVTNVSPSASSEQMRTLFGFLGKIDELRLFPPE 480
QVTNVSPSASSEQMRTLFGFLGKIDELRLFPP+
Sbjct: 64 QVTNVSPSASSEQMRTLFGFLGKIDELRLFPPD 96
>ref|NP_001087222.1| splicing factor, arginine/serine-rich 11 isoform 1 [Mus musculus].
Length = 476
Score = 75.5 bits (184), Expect = 8e-14
Identities = 43/67 (64%), Positives = 45/67 (67%)
Frame = +1
Query: 280 MSNTTVVPSTXXXXXXXXXXXXXXXXXXXXTEVIQVTNVSPSASSEQMRTLFGFLGKIDE 459
MS+T VVPS TEVIQVTNVSPSASSEQMRTLFGFLGKIDE
Sbjct: 1 MSSTAVVPSAPGPGPGPSGGPGGG------TEVIQVTNVSPSASSEQMRTLFGFLGKIDE 54
Query: 460 LRLFPPE 480
LRLFPP+
Sbjct: 55 LRLFPPD 61
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: 27,700,478
Number of extensions: 603560
Number of successful extensions: 1416
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 1412
Number of HSP's successfully gapped: 2
Length of query: 392
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 289
Effective length of database: 12,523,851
Effective search space: 3619392939
Effective search space used: 3619392939
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-003499
(1178 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_001038052.1| serine/arginine-rich splicing factor 11 [Sus... 86 5e-17
>ref|NP_001038052.1| serine/arginine-rich splicing factor 11 [Sus scrofa].
Length = 483
Score = 85.5 bits (210), Expect = 5e-17
Identities = 46/67 (68%), Positives = 47/67 (70%)
Frame = +1
Query: 280 MSNTTVVPSTXXXXXXXXXXXXXXXXXXXXTEVIQVTNVSPSASSEQMRTLFGFLGKIDE 459
MSNTTVVPST TEVIQVTNVSPSASSEQMRTLFGFLGKIDE
Sbjct: 1 MSNTTVVPSTAGPGPSGGPGGGGGGGGGGGTEVIQVTNVSPSASSEQMRTLFGFLGKIDE 60
Query: 460 LRLFPPE 480
LRLFPP+
Sbjct: 61 LRLFPPD 67
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: 21,363,420
Number of extensions: 595478
Number of successful extensions: 1096
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1093
Number of HSP's successfully gapped: 1
Length of query: 392
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 291
Effective length of database: 8,829,335
Effective search space: 2569336485
Effective search space used: 2569336485
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 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-003499
(1178 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_Chr06 1235 0.0
>Sscrofa_Chr06
|| Length = 157765593
Score = 1235 bits (623), Expect = 0.0
Identities = 669/688 (97%), Gaps = 1/688 (0%)
Strand = Plus / Minus
Query: 370 accgaggtaatccaggtgactaatgtctccccgagcgctagctctgagcagatgcggacc 429
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223658 accgaggtaatccaggtgactaatgtctccccgagcgctagctctgagcagatgcggacc 132223599
Query: 430 ctcttcggtttcctaggcaagatcgacgaactgcgcctcttcccgcctgagtgagtatgg 489
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223598 ctcttcggtttcctaggcaagatcgacgaactgcgcctcttcccgcctgagtgagtatgg 132223539
Query: 490 tccaccatcaccgtttctgcttaactcctccccagcctgggcctaacccgcaccatttcc 549
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223538 tccaccatcaccgtttctgcttaactcctccccagcctgggcctaacccgcaccatttcc 132223479
Query: 550 tggggccttgtcagtgcttcctagagctaggttcctttagctttaacggaggcaggctgt 609
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223478 tggggccttgtcagtgcttcctagagctaggttcctttagctttaacggaggcaggctgt 132223419
Query: 610 tgggtttacttacggaagtaaggcctactaatacagagccgagcttcgggggattaggga 669
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223418 tgggtttacttacggaagtaaggcctactaatacagagccgagcttcgggggattaggga 132223359
Query: 670 acactggctagtcttggaattcnnnnnnnnnnnnnnn-ccccttaaattgtgccggcgtg 728
|||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 132223358 acactggctagtcttggaattcttttttttttttttttccccttaaattgtgccggcgtg 132223299
Query: 729 gtcctcctttaggcacttaaagcaagacaaactgcacattttatgtgttttgtatatagg 788
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223298 gtcctcctttaggcacttaaagcaagacaaactgcacattttatgtgttttgtatatagg 132223239
Query: 789 ttcgtgtctttttaaaaattaagtgtttaacaatcattcttctctatgagaatttgatat 848
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223238 ttcgtgtctttttaaaaattaagtgtttaacaatcattcttctctatgagaatttgatat 132223179
Query: 849 tgaactttgtaggctgttgttcgcttattgctaaatattgtttagtaactctggtccagt 908
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223178 tgaactttgtaggctgttgttcgcttattgctaaatattgtttagtaactctggtccagt 132223119
Query: 909 gaatataattcagagttaatactctttgacagttaattcaaagagcttgagtgcttttta 968
|||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 132223118 gaatataattcagagttaatactctttgacagttaattcagagagcttgagtgcttttta 132223059
Query: 969 tgacaaaatgagttatagctgaaatctaagcttttcctttgtttaaataatggatacatt 1028
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223058 tgacaaaatgagttatagctgaaatctaagcttttcctttgtttaaataatggatacatt 132222999
Query: 1029 tatgatatttaaaaattgttccccggaa 1056
|||||||||||| |||||||| ||||||
Sbjct: 132222998 tatgatatttaagaattgttctccggaa 132222971
Score = 613 bits (309), Expect = e-173
Identities = 309/309 (100%)
Strand = Plus / Minus
Query: 1 ttctgggggaactcgggcagcaattgaggtggttggaggcgaggtgggggcggccgtttg 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132224027 ttctgggggaactcgggcagcaattgaggtggttggaggcgaggtgggggcggccgtttg 132223968
Query: 61 ttttctcgtggtctcgaactcgcgcgctcttttcctccctctccccccgcctcccccggc 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223967 ttttctcgtggtctcgaactcgcgcgctcttttcctccctctccccccgcctcccccggc 132223908
Query: 121 gagcggcagggaggagaaacggcggcgacggaagcagcggctgtagctccggacaccgtt 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223907 gagcggcagggaggagaaacggcggcgacggaagcagcggctgtagctccggacaccgtt 132223848
Query: 181 ctgtcttctcttcagcgaaccggttcctcttccccctccctctcactgtttgttgtgtgt 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223847 ctgtcttctcttcagcgaaccggttcctcttccccctccctctcactgtttgttgtgtgt 132223788
Query: 241 ttgatgtgttaaagcaggagcgagaacgcgagcagcgccatgagcaacactaccgtcgtc 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132223787 ttgatgtgttaaagcaggagcgagaacgcgagcagcgccatgagcaacactaccgtcgtc 132223728
Query: 301 cccagcact 309
|||||||||
Sbjct: 132223727 cccagcact 132223719
Score = 69.9 bits (35), Expect = 3e-09
Identities = 65/74 (87%), Gaps = 1/74 (1%)
Strand = Plus / Minus
Query: 1093 gctttttggttttaatcggttgccncacatttcttatttttatcaccaaa-attaaatga 1151
|||||||| ||||| || |||| | ||||||||||||||||||||||||| |||||||||
Sbjct: 132222933 gctttttgtttttattctgttgtctcacatttcttatttttatcaccaaatattaaatga 132222874
Query: 1152 atgcattacctgtg 1165
|||| || |||||
Sbjct: 132222873 gtgcaataactgtg 132222860
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: 34,282,848
Number of extensions: 516
Number of successful extensions: 516
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 516
Number of HSP's successfully gapped: 4
Length of query: 1178
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1157
Effective length of database: 2,808,413,156
Effective search space: 3249334021492
Effective search space used: 3249334021492
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)