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-015149
(955 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_848865.1| PREDICTED: similar to DEAD (Asp-Glu-Ala-Asp) bo... 466 e-140
Alignment gi|XP_857377.1| PREDICTED: similar to DEAD (Asp-Glu-Ala-Asp) bo... 466 e-140
Alignment gi|XP_532879.2| PREDICTED: similar to DEAD (Asp-Glu-Ala-Asp) bo... 457 e-137
Alignment gi|XP_866619.1| PREDICTED: similar to E1B-55kDa-associated prot... 82 1e-15
Alignment gi|XP_866605.1| PREDICTED: similar to E1B-55kDa-associated prot... 82 1e-15
Alignment gi|XP_866594.1| PREDICTED: similar to E1B-55kDa-associated prot... 82 1e-15
Alignment gi|XP_866586.1| PREDICTED: similar to E1B-55kDa-associated prot... 82 1e-15
Alignment gi|XP_533659.2| PREDICTED: similar to E1B-55kDa-associated prot... 82 1e-15
Alignment gi|XP_866555.1| PREDICTED: similar to E1B-55kDa-associated prot... 82 1e-15
Alignment gi|XP_866542.1| PREDICTED: similar to E1B-55kDa-associated prot... 82 1e-15
>ref|XP_848865.1| PREDICTED: similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 1
isoform 2 [Canis familiaris].
Length = 740
Score = 466 bits (1200), Expect(3) = e-140
Identities = 228/260 (87%), Positives = 230/260 (88%)
Frame = +1
Query: 73 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 252
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV
Sbjct: 1 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 60
Query: 253 IQIVYETLKDQQEXXXXXXXXXXXASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 432
IQIVYETLKDQQE ASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH
Sbjct: 61 IQIVYETLKDQQEGKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 120
Query: 433 GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD 612
GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQAS SHNKQFD
Sbjct: 121 GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASLDLGTDKFGFGFGGTGKKSHNKQFD 180
Query: 613 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 792
NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF
Sbjct: 181 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 240
Query: 793 NFGEEEFKFPTKDGFVALSR 852
NFGEEEFKFP KDGFVAL++
Sbjct: 241 NFGEEEFKFPPKDGFVALAK 260
Score = 42.4 bits (98), Expect(3) = e-140
Identities = 19/25 (76%), Positives = 22/25 (88%)
Frame = +3
Query: 849 KASDSFVCQSQHSGNAQVAQTSFSP 923
KASDS+V +SQH+GNAQVAQT F P
Sbjct: 260 KASDSYVVKSQHTGNAQVAQTKFLP 284
Score = 30.4 bits (67), Expect(3) = e-140
Identities = 13/15 (86%), Positives = 15/15 (100%)
Frame = +2
Query: 911 QFLPHAPKALIVEPS 955
+FLP+APKALIVEPS
Sbjct: 281 KFLPNAPKALIVEPS 295
>ref|XP_857377.1| PREDICTED: similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 1
isoform 5 [Canis familiaris].
Length = 734
Score = 466 bits (1200), Expect(3) = e-140
Identities = 228/260 (87%), Positives = 230/260 (88%)
Frame = +1
Query: 73 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 252
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV
Sbjct: 1 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 60
Query: 253 IQIVYETLKDQQEXXXXXXXXXXXASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 432
IQIVYETLKDQQE ASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH
Sbjct: 61 IQIVYETLKDQQEGKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 120
Query: 433 GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD 612
GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQAS SHNKQFD
Sbjct: 121 GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASLDLGTDKFGFGFGGTGKKSHNKQFD 180
Query: 613 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 792
NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF
Sbjct: 181 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 240
Query: 793 NFGEEEFKFPTKDGFVALSR 852
NFGEEEFKFP KDGFVAL++
Sbjct: 241 NFGEEEFKFPPKDGFVALAK 260
Score = 42.4 bits (98), Expect(3) = e-140
Identities = 19/25 (76%), Positives = 22/25 (88%)
Frame = +3
Query: 849 KASDSFVCQSQHSGNAQVAQTSFSP 923
KASDS+V +SQH+GNAQVAQT F P
Sbjct: 260 KASDSYVVKSQHTGNAQVAQTKFLP 284
Score = 30.4 bits (67), Expect(3) = e-140
Identities = 13/15 (86%), Positives = 15/15 (100%)
Frame = +2
Query: 911 QFLPHAPKALIVEPS 955
+FLP+APKALIVEPS
Sbjct: 281 KFLPNAPKALIVEPS 295
>ref|XP_532879.2| PREDICTED: similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 1
isoform 1 [Canis familiaris].
Length = 784
Score = 457 bits (1177), Expect(3) = e-137
Identities = 223/255 (87%), Positives = 225/255 (88%)
Frame = +1
Query: 88 EMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVY 267
EMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVY
Sbjct: 50 EMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVY 109
Query: 268 ETLKDQQEXXXXXXXXXXXASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRAT 447
ETLKDQQE ASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRAT
Sbjct: 110 ETLKDQQEGKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRAT 169
Query: 448 KGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEE 627
KGLTKGKHYYEVSCHDQGLCRVGWSSMQAS SHNKQFDNYGEE
Sbjct: 170 KGLTKGKHYYEVSCHDQGLCRVGWSSMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEE 229
Query: 628 FTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEE 807
FTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEE
Sbjct: 230 FTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEE 289
Query: 808 EFKFPTKDGFVALSR 852
EFKFP KDGFVAL++
Sbjct: 290 EFKFPPKDGFVALAK 304
Score = 42.4 bits (98), Expect(3) = e-137
Identities = 19/25 (76%), Positives = 22/25 (88%)
Frame = +3
Query: 849 KASDSFVCQSQHSGNAQVAQTSFSP 923
KASDS+V +SQH+GNAQVAQT F P
Sbjct: 304 KASDSYVVKSQHTGNAQVAQTKFLP 328
Score = 30.4 bits (67), Expect(3) = e-137
Identities = 13/15 (86%), Positives = 15/15 (100%)
Frame = +2
Query: 911 QFLPHAPKALIVEPS 955
+FLP+APKALIVEPS
Sbjct: 325 KFLPNAPKALIVEPS 339
>ref|XP_866619.1| PREDICTED: similar to E1B-55kDa-associated protein 5 isoform b
isoform 14 [Canis familiaris].
Length = 858
Score = 81.6 bits (200), Expect = 1e-15
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 227 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 280
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 281 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 340
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 341 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 385
>ref|XP_866605.1| PREDICTED: similar to E1B-55kDa-associated protein 5 isoform b
isoform 13 [Canis familiaris].
Length = 804
Score = 81.6 bits (200), Expect = 1e-15
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 227 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 280
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 281 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 340
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 341 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 385
>ref|XP_866594.1| PREDICTED: similar to E1B-55kDa-associated protein 5 isoform b
isoform 12 [Canis familiaris].
Length = 856
Score = 81.6 bits (200), Expect = 1e-15
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 227 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 280
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 281 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 340
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 341 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 385
>ref|XP_866586.1| PREDICTED: similar to E1B-55kDa-associated protein 5 isoform d
isoform 11 [Canis familiaris].
Length = 756
Score = 81.6 bits (200), Expect = 1e-15
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 127 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 180
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 181 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 240
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 241 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 285
>ref|XP_533659.2| PREDICTED: similar to E1B-55kDa-associated protein 5 isoform d
isoform 1 [Canis familiaris].
Length = 756
Score = 81.6 bits (200), Expect = 1e-15
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 127 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 180
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 181 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 240
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 241 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 285
>ref|XP_866555.1| PREDICTED: similar to E1B-55kDa-associated protein 5 isoform b
isoform 10 [Canis familiaris].
Length = 822
Score = 81.6 bits (200), Expect = 1e-15
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 227 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 280
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 281 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 340
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 341 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 385
>ref|XP_866542.1| PREDICTED: similar to E1B-55kDa-associated protein 5 isoform b
isoform 9 [Canis familiaris].
Length = 859
Score = 81.6 bits (200), Expect = 1e-15
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 230 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 283
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 284 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 343
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 344 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 388
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: 36,585,432
Number of extensions: 928336
Number of successful extensions: 2983
Number of sequences better than 1.0e-05: 42
Number of HSP's gapped: 2937
Number of HSP's successfully gapped: 48
Length of query: 318
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 215
Effective length of database: 15,440,896
Effective search space: 3319792640
Effective search space used: 3319792640
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)
Animal-Genome cDNA 20110601C-015149
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-015149
(955 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_001068936.1| ATP-dependent RNA helicase DDX1 [Bos taurus]. 468 e-139
Alignment gi|NP_001193174.1| heterogeneous nuclear ribonucleoprotein U-li... 82 5e-16
Alignment gi|XP_002699340.1| PREDICTED: heterogeneous nuclear ribonucleop... 82 5e-16
Alignment gi|NP_001076935.1| heterogeneous nuclear ribonucleoprotein U-li... 82 9e-16
Alignment gi|NP_001039850.1| probable ATP-dependent RNA helicase DDX47 [B... 73 4e-13
Alignment gi|NP_001179993.1| E3 ubiquitin-protein ligase RNF123 [Bos taur... 69 8e-12
Alignment gi|NP_001070388.2| heterogeneous nuclear ribonucleoprotein U [B... 69 8e-12
Alignment gi|XP_002697083.1| PREDICTED: ring finger protein 123-like [Bos... 69 8e-12
Alignment gi|NP_001029501.1| probable ATP-dependent RNA helicase DDX56 [B... 62 1e-09
Alignment gi|NP_001075198.1| probable ATP-dependent RNA helicase DDX49 [B... 55 7e-08
>ref|NP_001068936.1| ATP-dependent RNA helicase DDX1 [Bos taurus].
Length = 740
Score = 468 bits (1203), Expect(3) = e-139
Identities = 229/260 (88%), Positives = 230/260 (88%)
Frame = +1
Query: 73 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 252
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV
Sbjct: 1 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 60
Query: 253 IQIVYETLKDQQEXXXXXXXXXXXASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 432
IQIVYETLKDQQE ASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH
Sbjct: 61 IQIVYETLKDQQEGKKGKATIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 120
Query: 433 GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD 612
GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQAS SHNKQFD
Sbjct: 121 GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASLDLGTDKFGFGFGGTGKKSHNKQFD 180
Query: 613 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 792
NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF
Sbjct: 181 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 240
Query: 793 NFGEEEFKFPTKDGFVALSR 852
NFGEEEFKFP KDGFVALS+
Sbjct: 241 NFGEEEFKFPPKDGFVALSK 260
Score = 38.1 bits (87), Expect(3) = e-139
Identities = 17/25 (68%), Positives = 21/25 (84%)
Frame = +3
Query: 849 KASDSFVCQSQHSGNAQVAQTSFSP 923
KA +SFV +SQH+G+AQVAQT F P
Sbjct: 260 KAPESFVVKSQHTGSAQVAQTKFLP 284
Score = 30.4 bits (67), Expect(3) = e-139
Identities = 13/15 (86%), Positives = 15/15 (100%)
Frame = +2
Query: 911 QFLPHAPKALIVEPS 955
+FLP+APKALIVEPS
Sbjct: 281 KFLPNAPKALIVEPS 295
>ref|NP_001193174.1| heterogeneous nuclear ribonucleoprotein U-like protein 2 [Bos
taurus].
Length = 749
Score = 82.4 bits (202), Expect = 5e-16
Identities = 52/152 (34%), Positives = 76/152 (50%), Gaps = 14/152 (9%)
Frame = +1
Query: 427 WHGCRATKGLTKGKHYYEVS----------CHDQGLCRVGWSSMQASXXXXXXXXXXXXX 576
W G R+T G+TKGK +E C + L RVGWS +
Sbjct: 279 WSGARSTYGVTKGKVCFEAKVTQNLPMKEGCTEVSLLRVGWSVDFSHPQLGEDEFSYGFD 338
Query: 577 XXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK--FSKNGKDLGLAFEIPPH-MKNQ 747
+ N QF+ +G+ F +D IGC+ + + V+ FSKNG+DLG+AF I + ++
Sbjct: 339 GRGLKAENGQFEEFGQTFGENDVIGCFANFEAEEVELSFSKNGEDLGVAFRISKESLADR 398
Query: 748 ALFPACVLKNAELKFNFGE-EEFKFPTKDGFV 840
AL P + KN ++ NFG+ EE FP + FV
Sbjct: 399 ALLPHVLCKNCVVELNFGQKEEPFFPPPEEFV 430
>ref|XP_002699340.1| PREDICTED: heterogeneous nuclear ribonucleoprotein U-like [Bos
taurus].
Length = 749
Score = 82.4 bits (202), Expect = 5e-16
Identities = 52/152 (34%), Positives = 76/152 (50%), Gaps = 14/152 (9%)
Frame = +1
Query: 427 WHGCRATKGLTKGKHYYEVS----------CHDQGLCRVGWSSMQASXXXXXXXXXXXXX 576
W G R+T G+TKGK +E C + L RVGWS +
Sbjct: 279 WSGARSTYGVTKGKVCFEAKVTQNLPMKEGCTEVSLLRVGWSVDFSHPQLGEDEFSYGFD 338
Query: 577 XXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK--FSKNGKDLGLAFEIPPH-MKNQ 747
+ N QF+ +G+ F +D IGC+ + + V+ FSKNG+DLG+AF I + ++
Sbjct: 339 GRGLKAENGQFEEFGQTFGENDVIGCFANFEAEEVELSFSKNGEDLGVAFRISKESLADR 398
Query: 748 ALFPACVLKNAELKFNFGE-EEFKFPTKDGFV 840
AL P + KN ++ NFG+ EE FP + FV
Sbjct: 399 ALLPHVLCKNCVVELNFGQKEEPFFPPPEEFV 430
>ref|NP_001076935.1| heterogeneous nuclear ribonucleoprotein U-like protein 1 [Bos
taurus].
Length = 858
Score = 81.6 bits (200), Expect = 9e-16
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 228 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 281
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 282 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 341
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 342 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 386
>ref|NP_001039850.1| probable ATP-dependent RNA helicase DDX47 [Bos taurus].
Length = 457
Score = 72.8 bits (177), Expect = 4e-13
Identities = 35/90 (38%), Positives = 54/90 (60%)
Frame = +1
Query: 4 AATAQRVGAEGGSADGVAEDRAKMAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLIL 183
AA+ + E A A + + F ++GV + +A +++ W PT IQ E+IPL L
Sbjct: 2 AASVEHDSLESMEAPQTAVEVEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLAL 61
Query: 184 GGGDVLMAAETGSGKTGAFSIPVIQIVYET 273
G D++ AETGSGKTGAF++P++ + ET
Sbjct: 62 QGRDIIGLAETGSGKTGAFALPILNALLET 91
>ref|NP_001179993.1| E3 ubiquitin-protein ligase RNF123 [Bos taurus].
Length = 1313
Score = 68.6 bits (166), Expect = 8e-12
Identities = 41/133 (30%), Positives = 62/133 (46%), Gaps = 5/133 (3%)
Frame = +1
Query: 439 RATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD-- 612
R+T + KGK YEV QGL ++GW ++ + ++++
Sbjct: 126 RSTTCVYKGKWIYEVLISSQGLMQIGWCTINCRFNQEEGVGDTHNSYAYDGNRVRKWNVT 185
Query: 613 --NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAE- 783
NYG+ + D + C +D+D+G + FS NG LG AFE A FPA L E
Sbjct: 186 TTNYGKAWAAGDIVSCLIDLDEGTLSFSLNGVSLGTAFENLSRGLGMAYFPAISLSFKES 245
Query: 784 LKFNFGEEEFKFP 822
+ FNFG ++P
Sbjct: 246 VAFNFGSRPLRYP 258
>ref|NP_001070388.2| heterogeneous nuclear ribonucleoprotein U [Bos taurus].
Length = 825
Score = 68.6 bits (166), Expect = 8e-12
Identities = 49/177 (27%), Positives = 82/177 (46%), Gaps = 23/177 (12%)
Frame = +1
Query: 349 MNPYDRGSAFAIGSDGLCCQSREVKE----WHGCRATKGLTKGK--------------HY 474
++ Y+ F I D L S ++ W G RA+ G++KGK H
Sbjct: 290 LDTYNCDLHFKISRDRLSASSLTMESFAFLWAGGRASYGVSKGKVCFEMKVTEKIPVRHL 349
Query: 475 Y--EVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTI 648
Y ++ H+ R+GWS + + N + ++YGE+F +D I
Sbjct: 350 YTKDIDIHE---VRIGWSLTTSGMLLGEEEFSYGYSLKGIKTCNCETEDYGEKFDENDVI 406
Query: 649 GCYLDIDKGHVKFS--KNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGEEE 810
C+ + + V+ S KNG+DLG+AF+I + + LFP + N ++FNFG++E
Sbjct: 407 TCFANFESDEVELSYAKNGQDLGIAFKISKEVLAGRPLFPHVLCHNCAVEFNFGQKE 463
>ref|XP_002697083.1| PREDICTED: ring finger protein 123-like [Bos taurus].
Length = 1313
Score = 68.6 bits (166), Expect = 8e-12
Identities = 41/133 (30%), Positives = 62/133 (46%), Gaps = 5/133 (3%)
Frame = +1
Query: 439 RATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD-- 612
R+T + KGK YEV QGL ++GW ++ + ++++
Sbjct: 126 RSTTCVYKGKWIYEVLISSQGLMQIGWCTINCRFNQEEGVGDTHNSYAYDGNRVRKWNVT 185
Query: 613 --NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAE- 783
NYG+ + D + C +D+D+G + FS NG LG AFE A FPA L E
Sbjct: 186 TTNYGKAWAAGDIVSCLIDLDEGTLSFSLNGVSLGTAFENLSRGLGMAYFPAISLSFKES 245
Query: 784 LKFNFGEEEFKFP 822
+ FNFG ++P
Sbjct: 246 VAFNFGSRPLRYP 258
>ref|NP_001029501.1| probable ATP-dependent RNA helicase DDX56 [Bos taurus].
Length = 546
Score = 61.6 bits (148), Expect = 1e-09
Identities = 29/61 (47%), Positives = 42/61 (68%)
Frame = +1
Query: 82 FSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQI 261
F MG+ + QAV ++ W PT IQ ++IPL L G D+L A TGSGKT A++IP++Q+
Sbjct: 9 FEHMGLDHRLLQAVTDLGWSRPTLIQEKAIPLALEGKDLLARARTGSGKTAAYAIPMLQL 68
Query: 262 V 264
+
Sbjct: 69 L 69
>ref|NP_001075198.1| probable ATP-dependent RNA helicase DDX49 [Bos taurus].
Length = 392
Score = 55.5 bits (132), Expect = 7e-08
Identities = 28/66 (42%), Positives = 40/66 (60%)
Frame = +1
Query: 73 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 252
MA F+E+G+ + + +M PT +Q IP IL G D L A+TGSGKT AF +P+
Sbjct: 1 MAGFAELGLSSWLVEQCRQMGLKQPTPVQLGCIPAILEGRDCLGCAKTGSGKTAAFVLPI 60
Query: 253 IQIVYE 270
+Q + E
Sbjct: 61 LQKLSE 66
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: 34,996,685
Number of extensions: 901127
Number of successful extensions: 2691
Number of sequences better than 1.0e-05: 20
Number of HSP's gapped: 2671
Number of HSP's successfully gapped: 22
Length of query: 318
Length of database: 17,681,374
Length adjustment: 102
Effective length of query: 216
Effective length of database: 14,306,398
Effective search space: 3090181968
Effective search space used: 3090181968
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-015149
(955 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_003354965.1| PREDICTED: ATP-dependent RNA helicase DDX1-l... 468 e-134
Alignment gi|XP_003353867.1| PREDICTED: heterogeneous nuclear ribonucleop... 82 3e-16
Alignment gi|XP_003361101.1| PREDICTED: probable ATP-dependent RNA helica... 71 1e-12
Alignment gi|XP_003130615.2| PREDICTED: heterogeneous nuclear ribonucleop... 69 3e-12
Alignment gi|XP_003360249.1| PREDICTED: probable ATP-dependent RNA helica... 66 3e-11
Alignment gi|XP_003132264.1| PREDICTED: e3 ubiquitin-protein ligase RNF12... 66 3e-11
Alignment gi|XP_003134927.1| PREDICTED: LOW QUALITY PROTEIN: probable ATP... 59 4e-09
Alignment gi|XP_003355824.1| PREDICTED: probable ATP-dependent RNA helica... 55 3e-08
Alignment gi|XP_003132954.1| PREDICTED: ATP-dependent RNA helicase DDX54-... 55 7e-08
Alignment gi|XP_003129962.1| PREDICTED: probable ATP-dependent RNA helica... 54 1e-07
>ref|XP_003354965.1| PREDICTED: ATP-dependent RNA helicase DDX1-like [Sus scrofa].
Length = 707
Score = 468 bits (1204), Expect(2) = e-134
Identities = 235/287 (81%), Positives = 240/287 (83%), Gaps = 4/287 (1%)
Frame = +1
Query: 73 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 252
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV
Sbjct: 1 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 60
Query: 253 IQIVYETLKDQQEXXXXXXXXXXXASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 432
IQIVYETLKDQQE ASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH
Sbjct: 61 IQIVYETLKDQQEGKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 120
Query: 433 GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD 612
GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQAS SHNKQFD
Sbjct: 121 GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASLDLGTDKFGFGFGGTGKKSHNKQFD 180
Query: 613 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 792
NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF
Sbjct: 181 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 240
Query: 793 NFGEEEFKFPTKDGFVALSRHR----IASFASHSTQVMRRWLKPVSP 921
NFGEEEFKFP KDGFVALS+ + S S + QV + P +P
Sbjct: 241 NFGEEEFKFPPKDGFVALSKASDSFVVKSQHSGNAQVAQTKFLPNAP 287
Score = 30.4 bits (67), Expect(2) = e-134
Identities = 13/15 (86%), Positives = 15/15 (100%)
Frame = +2
Query: 911 QFLPHAPKALIVEPS 955
+FLP+APKALIVEPS
Sbjct: 281 KFLPNAPKALIVEPS 295
>ref|XP_003353867.1| PREDICTED: heterogeneous nuclear ribonucleoprotein U-like protein 2
[Sus scrofa].
Length = 747
Score = 82.4 bits (202), Expect = 3e-16
Identities = 52/152 (34%), Positives = 76/152 (50%), Gaps = 14/152 (9%)
Frame = +1
Query: 427 WHGCRATKGLTKGKHYYEVS----------CHDQGLCRVGWSSMQASXXXXXXXXXXXXX 576
W G R+T G+TKGK +E C + L RVGWS +
Sbjct: 279 WSGARSTYGVTKGKVCFEAKVTQNLPMKEGCTEVSLLRVGWSVDFSHPQLGEDEFSYGFD 338
Query: 577 XXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK--FSKNGKDLGLAFEIPPH-MKNQ 747
+ N QF+ +G+ F +D IGC+ + + V+ FSKNG+DLG+AF I + ++
Sbjct: 339 GRGLKAENGQFEEFGQTFGENDVIGCFANFEAEEVELSFSKNGEDLGVAFRISKESLADR 398
Query: 748 ALFPACVLKNAELKFNFGE-EEFKFPTKDGFV 840
AL P + KN ++ NFG+ EE FP + FV
Sbjct: 399 ALLPHVLCKNCVVELNFGQKEEPFFPPPEEFV 430
>ref|XP_003361101.1| PREDICTED: probable ATP-dependent RNA helicase DDX47-like [Sus
scrofa].
Length = 473
Score = 70.9 bits (172), Expect = 1e-12
Identities = 35/90 (38%), Positives = 54/90 (60%)
Frame = +1
Query: 4 AATAQRVGAEGGSADGVAEDRAKMAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLIL 183
AA+ + + V E+ K F ++GV + +A +++ W PT IQ E+IPL L
Sbjct: 55 AASEEHDSSAEAPQTAVEEEETK--TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLAL 112
Query: 184 GGGDVLMAAETGSGKTGAFSIPVIQIVYET 273
G D++ AETGSGKTGAF++P++ + ET
Sbjct: 113 QGRDIIGLAETGSGKTGAFALPILNALLET 142
>ref|XP_003130615.2| PREDICTED: heterogeneous nuclear ribonucleoprotein U [Sus scrofa].
Length = 963
Score = 69.3 bits (168), Expect = 3e-12
Identities = 52/190 (27%), Positives = 87/190 (45%), Gaps = 26/190 (13%)
Frame = +1
Query: 349 MNPYDRGSAFAIGSDGLCCQSREVKE----WHGCRATKGLTKGK--------------HY 474
++ Y+ F I D L S ++ W G RA+ G++KGK H
Sbjct: 290 LDTYNCDLHFKISRDRLSASSLTMESFAFLWAGGRASYGVSKGKVCFEMKVTEKIPVRHL 349
Query: 475 Y--EVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTI 648
Y ++ H+ R+GWS + + N + ++YGE+F +D I
Sbjct: 350 YTKDIDIHE---VRIGWSLTTSGMLLGEEEFSYGYSLKGIKTCNCETEDYGEKFDENDVI 406
Query: 649 GCYLDIDKGHVKFS--KNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGEEE--- 810
C+ + + V+ S KNG+DLG+AF+I + + LFP + N ++FNFG++E
Sbjct: 407 TCFANFESDEVELSYAKNGQDLGIAFKISKEVLAERPLFPHVLCHNCAVEFNFGQKEKPY 466
Query: 811 FKFPTKDGFV 840
F P + F+
Sbjct: 467 FPIPEEYTFI 476
>ref|XP_003360249.1| PREDICTED: probable ATP-dependent RNA helicase DDX56-like [Sus
scrofa].
Length = 131
Score = 65.9 bits (159), Expect = 3e-11
Identities = 30/65 (46%), Positives = 45/65 (69%)
Frame = +1
Query: 70 KMAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIP 249
++ F MG+ P + QAV ++ W PT IQ ++IPL L G D+L A TGSGKT A++IP
Sbjct: 5 ELLGFEHMGLDPRLLQAVTDLGWSRPTLIQEKAIPLALEGKDLLARARTGSGKTAAYAIP 64
Query: 250 VIQIV 264
++Q++
Sbjct: 65 MLQLL 69
>ref|XP_003132264.1| PREDICTED: e3 ubiquitin-protein ligase RNF123 [Sus scrofa].
Length = 1314
Score = 65.9 bits (159), Expect = 3e-11
Identities = 40/133 (30%), Positives = 60/133 (45%), Gaps = 5/133 (3%)
Frame = +1
Query: 439 RATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD-- 612
R+T + KGK YEV QGL ++GW ++ + ++++
Sbjct: 125 RSTTCVYKGKWVYEVLISSQGLMQIGWCTINCRFNQEEGVGDTHNSYAYDGNRVRKWNVT 184
Query: 613 --NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAE- 783
NYG+ + D + C +D+D G + F NG LG AFE A FPA L E
Sbjct: 185 TTNYGKAWAAGDIVSCLIDLDDGTLSFCLNGVSLGTAFENLSRGLGMAYFPAISLSFKES 244
Query: 784 LKFNFGEEEFKFP 822
+ FNFG ++P
Sbjct: 245 VAFNFGSRPLRYP 257
>ref|XP_003134927.1| PREDICTED: LOW QUALITY PROTEIN: probable ATP-dependent RNA helicase
DDX56-like [Sus scrofa].
Length = 546
Score = 58.9 bits (141), Expect = 4e-09
Identities = 27/65 (41%), Positives = 41/65 (63%)
Frame = +1
Query: 70 KMAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIP 249
++ F MG+ P + QAV ++ W PT IQ + IPL L G D + A G GKT A++IP
Sbjct: 5 ELLGFEHMGLDPRLLQAVTDLGWSRPTLIQEKXIPLALEGKDSWLGAARGQGKTAAYAIP 64
Query: 250 VIQIV 264
++Q++
Sbjct: 65 MLQLL 69
>ref|XP_003355824.1| PREDICTED: probable ATP-dependent RNA helicase DDX28-like [Sus
scrofa].
Length = 540
Score = 55.1 bits (131), Expect(2) = 3e-08
Identities = 25/62 (40%), Positives = 44/62 (70%), Gaps = 2/62 (3%)
Frame = +1
Query: 79 AFSEMGVMPEIAQAVEEM--DWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 252
+F+++G+ P + A++E + + PT +Q+ +IP +LGG +L AAETGSGKT + +P+
Sbjct: 127 SFADLGLEPRVLSALQEAAPEVVRPTTVQSSTIPPLLGGRHILCAAETGSGKTLGYMLPL 186
Query: 253 IQ 258
+Q
Sbjct: 187 LQ 188
Score = 20.8 bits (42), Expect(2) = 3e-08
Identities = 8/23 (34%), Positives = 12/23 (52%)
Frame = +2
Query: 20 VSVQREAAQTESRRTGQRWRPSP 88
+S +R +R T RW P+P
Sbjct: 69 ISARRPELNQPARLTLGRWEPAP 91
>ref|XP_003132954.1| PREDICTED: ATP-dependent RNA helicase DDX54-like [Sus scrofa].
Length = 205
Score = 54.7 bits (130), Expect = 7e-08
Identities = 26/65 (40%), Positives = 39/65 (60%)
Frame = +1
Query: 64 RAKMAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFS 243
+ K F MG+ + + + + + +PT IQ ++IPLIL G DV+ A TGSGKT F
Sbjct: 92 KKKSGGFQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPLILDGKDVVAMARTGSGKTACFL 151
Query: 244 IPVIQ 258
IP+ +
Sbjct: 152 IPMFE 156
>ref|XP_003129962.1| PREDICTED: probable ATP-dependent RNA helicase DDX6 isoform 1 [Sus
scrofa].
Length = 483
Score = 54.3 bits (129), Expect = 1e-07
Identities = 24/59 (40%), Positives = 38/59 (64%)
Frame = +1
Query: 82 FSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQ 258
F + + E+ + EM W P+ IQ ESIP+ L G D+L A+ G+GK+GA+ IP+++
Sbjct: 98 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 156
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: 22,513,925
Number of extensions: 577886
Number of successful extensions: 1847
Number of sequences better than 1.0e-05: 20
Number of HSP's gapped: 1833
Number of HSP's successfully gapped: 22
Length of query: 318
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 219
Effective length of database: 8,879,129
Effective search space: 1944529251
Effective search space used: 1944529251
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 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-015149
(955 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_598801.1| ATP-dependent RNA helicase DDX1 [Mus musculus]. 457 e-136
Alignment gi|NP_001074665.1| heterogeneous nuclear ribonucleoprotein U-li... 82 5e-16
Alignment gi|NP_659171.1| heterogeneous nuclear ribonucleoprotein U-like ... 82 8e-16
Alignment gi|NP_080636.2| probable ATP-dependent RNA helicase DDX47 [Mus ... 70 2e-12
Alignment gi|NP_058085.2| heterogeneous nuclear ribonucleoprotein U [Mus ... 69 7e-12
Alignment gi|NP_115932.1| E3 ubiquitin-protein ligase RNF123 [Mus musculu... 66 5e-11
Alignment gi|NP_080814.1| probable ATP-dependent RNA helicase DDX56 [Mus ... 64 2e-10
Alignment gi|NP_001104296.1| probable ATP-dependent RNA helicase DDX6 [Mu... 54 1e-07
Alignment gi|NP_851841.2| probable ATP-dependent RNA helicase DDX6 [Mus m... 54 1e-07
Alignment gi|NP_031867.1| probable ATP-dependent RNA helicase DDX6 [Mus m... 54 1e-07
>ref|NP_598801.1| ATP-dependent RNA helicase DDX1 [Mus musculus].
Length = 740
Score = 457 bits (1175), Expect(3) = e-136
Identities = 223/260 (85%), Positives = 227/260 (87%)
Frame = +1
Query: 73 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 252
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV
Sbjct: 1 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 60
Query: 253 IQIVYETLKDQQEXXXXXXXXXXXASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 432
IQIVYETLKDQQE ASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH
Sbjct: 61 IQIVYETLKDQQEGKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 120
Query: 433 GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD 612
GCR T+GL KGKHYYEVSCHDQGLCRVGWS+MQAS SHNKQFD
Sbjct: 121 GCRGTRGLLKGKHYYEVSCHDQGLCRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFD 180
Query: 613 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 792
NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIP H+KNQALFPACVLKNAELKF
Sbjct: 181 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPAHIKNQALFPACVLKNAELKF 240
Query: 793 NFGEEEFKFPTKDGFVALSR 852
NFGEEEFKFP KDGFVALS+
Sbjct: 241 NFGEEEFKFPPKDGFVALSK 260
Score = 37.7 bits (86), Expect(3) = e-136
Identities = 15/25 (60%), Positives = 21/25 (84%)
Frame = +3
Query: 849 KASDSFVCQSQHSGNAQVAQTSFSP 923
KA D+++ +SQH+GNAQV+QT F P
Sbjct: 260 KAPDNYIVKSQHTGNAQVSQTKFLP 284
Score = 30.4 bits (67), Expect(3) = e-136
Identities = 13/15 (86%), Positives = 15/15 (100%)
Frame = +2
Query: 911 QFLPHAPKALIVEPS 955
+FLP+APKALIVEPS
Sbjct: 281 KFLPNAPKALIVEPS 295
>ref|NP_001074665.1| heterogeneous nuclear ribonucleoprotein U-like protein 2 [Mus
musculus].
Length = 745
Score = 82.4 bits (202), Expect = 5e-16
Identities = 52/152 (34%), Positives = 76/152 (50%), Gaps = 14/152 (9%)
Frame = +1
Query: 427 WHGCRATKGLTKGKHYYEVS----------CHDQGLCRVGWSSMQASXXXXXXXXXXXXX 576
W G R+T G+TKGK +E C + L RVGWS +
Sbjct: 276 WSGARSTYGVTKGKVCFEAKVTQNLPMKEGCTEVSLLRVGWSVDFSCSQLGEDEFSYGFD 335
Query: 577 XXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK--FSKNGKDLGLAFEIPPH-MKNQ 747
+ N QF+ +G+ F +D IGC+ + + V+ FSKNG+DLG+AF I + ++
Sbjct: 336 GRGLKAENGQFEEFGQTFGENDVIGCFANFETEEVELSFSKNGEDLGVAFRISKESLADR 395
Query: 748 ALFPACVLKNAELKFNFGE-EEFKFPTKDGFV 840
AL P + KN ++ NFG+ EE FP + FV
Sbjct: 396 ALLPHVLCKNCVVELNFGQKEEPFFPPPEEFV 427
>ref|NP_659171.1| heterogeneous nuclear ribonucleoprotein U-like protein 1 isoform 1
[Mus musculus].
Length = 859
Score = 81.6 bits (200), Expect = 8e-16
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 228 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 281
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 282 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 341
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 342 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 386
>ref|NP_080636.2| probable ATP-dependent RNA helicase DDX47 [Mus musculus].
Length = 455
Score = 70.5 bits (171), Expect = 2e-12
Identities = 31/73 (42%), Positives = 48/73 (65%)
Frame = +1
Query: 55 AEDRAKMAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTG 234
A + + F ++GV + +A +++ W PT IQ E+IPL L G D++ AETGSGKTG
Sbjct: 17 AAEEEETKTFKDLGVTDVLCEACDQLGWAKPTKIQIEAIPLALQGRDIIGLAETGSGKTG 76
Query: 235 AFSIPVIQIVYET 273
AF++P++ + ET
Sbjct: 77 AFALPILNALLET 89
>ref|NP_058085.2| heterogeneous nuclear ribonucleoprotein U [Mus musculus].
Length = 800
Score = 68.6 bits (166), Expect = 7e-12
Identities = 48/177 (27%), Positives = 84/177 (47%), Gaps = 23/177 (12%)
Frame = +1
Query: 349 MNPYDRGSAFAIGSDGLCCQSREVKE----WHGCRATKGLTKGK--------------HY 474
++ Y+ F I D L S ++ W G RA+ G++KGK H
Sbjct: 266 LDTYNCDLHFKISRDRLSASSLTMESFAFLWAGGRASYGVSKGKVCFEMKVTEKIPVRHL 325
Query: 475 Y--EVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTI 648
Y ++ H+ R+GWS + + N + ++YGE+F +D I
Sbjct: 326 YTKDIDIHE---VRIGWSLTTSGMLLGEEEFSYGYSLKGIKTCNCETEDYGEKFDENDVI 382
Query: 649 GCY--LDIDKGHVKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGEEE 810
C+ + D+ + ++KNG+DLG+AF+I + ++ LFP + N ++FNFG++E
Sbjct: 383 TCFANFETDEVELSYAKNGQDLGVAFKISKEVLADRPLFPHVLCHNCAVEFNFGQKE 439
>ref|NP_115932.1| E3 ubiquitin-protein ligase RNF123 [Mus musculus].
Length = 1314
Score = 65.9 bits (159), Expect = 5e-11
Identities = 40/133 (30%), Positives = 60/133 (45%), Gaps = 5/133 (3%)
Frame = +1
Query: 439 RATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD-- 612
R+T + KGK YEV QGL ++GW ++ + ++++
Sbjct: 125 RSTTCVYKGKWVYEVLISSQGLMQIGWCTINCRFNQEEGVGDTHNSYAYDGNRVRKWNVT 184
Query: 613 --NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAE- 783
NYG+ + D + C +D+D G + F NG LG AFE A FPA L E
Sbjct: 185 TTNYGKAWAAGDIVSCLIDLDDGTLSFCLNGVSLGTAFENLSRGLGMAYFPAISLSFKES 244
Query: 784 LKFNFGEEEFKFP 822
+ FNFG ++P
Sbjct: 245 VAFNFGSRPLRYP 257
>ref|NP_080814.1| probable ATP-dependent RNA helicase DDX56 [Mus musculus].
Length = 546
Score = 63.9 bits (154), Expect = 2e-10
Identities = 30/59 (50%), Positives = 41/59 (69%)
Frame = +1
Query: 82 FSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQ 258
F MG+ P + QAV ++ W PT IQ ++IPL L G D+L A TGSGKT A++IP++Q
Sbjct: 9 FEHMGLDPRLLQAVTDLGWSRPTLIQEKAIPLALEGKDLLARARTGSGKTAAYAIPMLQ 67
>ref|NP_001104296.1| probable ATP-dependent RNA helicase DDX6 [Mus musculus].
Length = 483
Score = 54.3 bits (129), Expect = 1e-07
Identities = 24/59 (40%), Positives = 38/59 (64%)
Frame = +1
Query: 82 FSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQ 258
F + + E+ + EM W P+ IQ ESIP+ L G D+L A+ G+GK+GA+ IP+++
Sbjct: 98 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 156
>ref|NP_851841.2| probable ATP-dependent RNA helicase DDX6 [Mus musculus].
Length = 483
Score = 54.3 bits (129), Expect = 1e-07
Identities = 24/59 (40%), Positives = 38/59 (64%)
Frame = +1
Query: 82 FSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQ 258
F + + E+ + EM W P+ IQ ESIP+ L G D+L A+ G+GK+GA+ IP+++
Sbjct: 98 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 156
>ref|NP_031867.1| probable ATP-dependent RNA helicase DDX6 [Mus musculus].
Length = 483
Score = 54.3 bits (129), Expect = 1e-07
Identities = 24/59 (40%), Positives = 38/59 (64%)
Frame = +1
Query: 82 FSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQ 258
F + + E+ + EM W P+ IQ ESIP+ L G D+L A+ G+GK+GA+ IP+++
Sbjct: 98 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 156
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: 30,725,488
Number of extensions: 787575
Number of successful extensions: 2336
Number of sequences better than 1.0e-05: 23
Number of HSP's gapped: 2323
Number of HSP's successfully gapped: 25
Length of query: 318
Length of database: 15,617,559
Length adjustment: 101
Effective length of query: 217
Effective length of database: 12,583,923
Effective search space: 2730711291
Effective search space used: 2730711291
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-015149
(955 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_004930.1| ATP-dependent RNA helicase DDX1 [Homo sapiens]. 465 e-133
Alignment gi|NP_653333.1| heterogeneous nuclear ribonucleoprotein U-like ... 82 9e-16
Alignment gi|NP_008971.2| heterogeneous nuclear ribonucleoprotein U-like ... 82 9e-16
Alignment gi|NP_001073027.1| heterogeneous nuclear ribonucleoprotein U-li... 81 2e-15
Alignment gi|NP_957518.1| probable ATP-dependent RNA helicase DDX47 isofo... 70 3e-12
Alignment gi|NP_057439.2| probable ATP-dependent RNA helicase DDX47 isofo... 70 3e-12
Alignment gi|NP_004492.2| heterogeneous nuclear ribonucleoprotein U isofo... 69 6e-12
Alignment gi|NP_114032.2| heterogeneous nuclear ribonucleoprotein U isofo... 69 6e-12
Alignment gi|NP_071347.2| E3 ubiquitin-protein ligase RNF123 [Homo sapien... 66 5e-11
Alignment gi|NP_061955.1| probable ATP-dependent RNA helicase DDX56 [Homo... 65 9e-11
>ref|NP_004930.1| ATP-dependent RNA helicase DDX1 [Homo sapiens].
Length = 740
Score = 465 bits (1197), Expect(2) = e-133
Identities = 233/287 (81%), Positives = 240/287 (83%), Gaps = 4/287 (1%)
Frame = +1
Query: 73 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 252
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV
Sbjct: 1 MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPV 60
Query: 253 IQIVYETLKDQQEXXXXXXXXXXXASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 432
IQIVYETLKDQQE ASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH
Sbjct: 61 IQIVYETLKDQQEGKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWH 120
Query: 433 GCRATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD 612
GCRATKGL KGKHYYEVSCHDQGLCRVGWS+MQAS SHNKQFD
Sbjct: 121 GCRATKGLMKGKHYYEVSCHDQGLCRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFD 180
Query: 613 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 792
NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF
Sbjct: 181 NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKF 240
Query: 793 NFGEEEFKFPTKDGFVALSR----HRIASFASHSTQVMRRWLKPVSP 921
NFGEEEFKFP KDGFVALS+ + + S S + QV + P +P
Sbjct: 241 NFGEEEFKFPPKDGFVALSKAPDGYIVKSQHSGNAQVTQTKFLPNAP 287
Score = 30.4 bits (67), Expect(2) = e-133
Identities = 13/15 (86%), Positives = 15/15 (100%)
Frame = +2
Query: 911 QFLPHAPKALIVEPS 955
+FLP+APKALIVEPS
Sbjct: 281 KFLPNAPKALIVEPS 295
>ref|NP_653333.1| heterogeneous nuclear ribonucleoprotein U-like protein 1 isoform d
[Homo sapiens].
Length = 756
Score = 81.6 bits (200), Expect = 9e-16
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 127 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 180
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 181 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 240
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 241 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 285
>ref|NP_008971.2| heterogeneous nuclear ribonucleoprotein U-like protein 1 isoform a
[Homo sapiens].
Length = 856
Score = 81.6 bits (200), Expect = 9e-16
Identities = 49/165 (29%), Positives = 80/165 (48%), Gaps = 17/165 (10%)
Frame = +1
Query: 361 DRGSAFAIGSDGLCCQSREVKEWHGCRATKGLTKGKHYYEVSCH-------------DQG 501
DR S + + +G W G RA+ G+ +G+ +E+ + D
Sbjct: 227 DRSSGYPLTIEGFAYL------WSGARASYGVRRGRVCFEMKINEEISVKHLPSTEPDPH 280
Query: 502 LCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGH- 678
+ R+GWS S S N +F+NYG++F +D IGC+ D + G+
Sbjct: 281 VVRIGWSLDSCSTQLGEEPFSYGYGGTGKKSTNSRFENYGDKFAENDVIGCFADFECGND 340
Query: 679 --VKFSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGE 804
+ F+KNGK +G+AF I + QAL+P ++KN ++FNFG+
Sbjct: 341 VELSFTKNGKWMGIAFRIQKEALGGQALYPHVLVKNCAVEFNFGQ 385
>ref|NP_001073027.1| heterogeneous nuclear ribonucleoprotein U-like protein 2 [Homo
sapiens].
Length = 747
Score = 80.9 bits (198), Expect = 2e-15
Identities = 52/152 (34%), Positives = 76/152 (50%), Gaps = 14/152 (9%)
Frame = +1
Query: 427 WHGCRATKGLTKGKHYYEVS----------CHDQGLCRVGWSSMQASXXXXXXXXXXXXX 576
W G R+T G+TKGK +E C + L RVGWS +
Sbjct: 278 WSGARSTYGVTKGKVCFEAKVTQNLPMKEGCTEVSLLRVGWSVDFSRPQLGEDEFSYGFD 337
Query: 577 XXXXXSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK--FSKNGKDLGLAFEI-PPHMKNQ 747
+ N QF+ +G+ F +D IGC+ + + V+ FSKNG+DLG+AF I + ++
Sbjct: 338 GRGLKAENGQFEEFGQTFGENDVIGCFANFETEEVELSFSKNGEDLGVAFWISKDSLADR 397
Query: 748 ALFPACVLKNAELKFNFGE-EEFKFPTKDGFV 840
AL P + KN ++ NFG+ EE FP + FV
Sbjct: 398 ALLPHVLCKNCVVELNFGQKEEPFFPPPEEFV 429
>ref|NP_957518.1| probable ATP-dependent RNA helicase DDX47 isoform 2 [Homo sapiens].
Length = 406
Score = 70.1 bits (170), Expect = 3e-12
Identities = 33/74 (44%), Positives = 49/74 (66%)
Frame = +1
Query: 52 VAEDRAKMAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKT 231
V E+ K F ++GV + +A +++ W PT IQ E+IPL L G D++ AETGSGKT
Sbjct: 18 VEEEETK--TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKT 75
Query: 232 GAFSIPVIQIVYET 273
GAF++P++ + ET
Sbjct: 76 GAFALPILNALLET 89
>ref|NP_057439.2| probable ATP-dependent RNA helicase DDX47 isoform 1 [Homo sapiens].
Length = 455
Score = 70.1 bits (170), Expect = 3e-12
Identities = 33/74 (44%), Positives = 49/74 (66%)
Frame = +1
Query: 52 VAEDRAKMAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKT 231
V E+ K F ++GV + +A +++ W PT IQ E+IPL L G D++ AETGSGKT
Sbjct: 18 VEEEETK--TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKT 75
Query: 232 GAFSIPVIQIVYET 273
GAF++P++ + ET
Sbjct: 76 GAFALPILNALLET 89
>ref|NP_004492.2| heterogeneous nuclear ribonucleoprotein U isoform b [Homo sapiens].
Length = 806
Score = 68.9 bits (167), Expect = 6e-12
Identities = 51/190 (26%), Positives = 88/190 (46%), Gaps = 26/190 (13%)
Frame = +1
Query: 349 MNPYDRGSAFAIGSDGLCCQSREVKE----WHGCRATKGLTKGK--------------HY 474
++ Y+ F I D L S ++ W G RA+ G++KGK H
Sbjct: 271 LDTYNCDLHFKISRDRLSASSLTMESFAFLWAGGRASYGVSKGKVCFEMKVTEKIPVRHL 330
Query: 475 Y--EVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTI 648
Y ++ H+ R+GWS + + N + ++YGE+F +D I
Sbjct: 331 YTKDIDIHE---VRIGWSLTTSGMLLGEEEFSYGYSLKGIKTCNCETEDYGEKFDENDVI 387
Query: 649 GCYLDIDKGHVK--FSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGEEE--- 810
C+ + + V+ ++KNG+DLG+AF+I + + LFP + N ++FNFG++E
Sbjct: 388 TCFANFESDEVELSYAKNGQDLGVAFKISKEVLAGRPLFPHVLCHNCAVEFNFGQKEKPY 447
Query: 811 FKFPTKDGFV 840
F P + F+
Sbjct: 448 FPIPEEYTFI 457
>ref|NP_114032.2| heterogeneous nuclear ribonucleoprotein U isoform a [Homo sapiens].
Length = 825
Score = 68.9 bits (167), Expect = 6e-12
Identities = 51/190 (26%), Positives = 88/190 (46%), Gaps = 26/190 (13%)
Frame = +1
Query: 349 MNPYDRGSAFAIGSDGLCCQSREVKE----WHGCRATKGLTKGK--------------HY 474
++ Y+ F I D L S ++ W G RA+ G++KGK H
Sbjct: 290 LDTYNCDLHFKISRDRLSASSLTMESFAFLWAGGRASYGVSKGKVCFEMKVTEKIPVRHL 349
Query: 475 Y--EVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFDNYGEEFTMHDTI 648
Y ++ H+ R+GWS + + N + ++YGE+F +D I
Sbjct: 350 YTKDIDIHE---VRIGWSLTTSGMLLGEEEFSYGYSLKGIKTCNCETEDYGEKFDENDVI 406
Query: 649 GCYLDIDKGHVK--FSKNGKDLGLAFEIPPH-MKNQALFPACVLKNAELKFNFGEEE--- 810
C+ + + V+ ++KNG+DLG+AF+I + + LFP + N ++FNFG++E
Sbjct: 407 TCFANFESDEVELSYAKNGQDLGVAFKISKEVLAGRPLFPHVLCHNCAVEFNFGQKEKPY 466
Query: 811 FKFPTKDGFV 840
F P + F+
Sbjct: 467 FPIPEEYTFI 476
>ref|NP_071347.2| E3 ubiquitin-protein ligase RNF123 [Homo sapiens].
Length = 1314
Score = 65.9 bits (159), Expect = 5e-11
Identities = 40/133 (30%), Positives = 60/133 (45%), Gaps = 5/133 (3%)
Frame = +1
Query: 439 RATKGLTKGKHYYEVSCHDQGLCRVGWSSMQASXXXXXXXXXXXXXXXXXXSHNKQFD-- 612
R+T + KGK YEV QGL ++GW ++ + ++++
Sbjct: 125 RSTTCVYKGKWLYEVLISSQGLMQIGWCTISCRFNQEEGVGDTHNSYAYDGNRVRKWNVT 184
Query: 613 --NYGEEFTMHDTIGCYLDIDKGHVKFSKNGKDLGLAFEIPPHMKNQALFPACVLKNAE- 783
NYG+ + D + C +D+D G + F NG LG AFE A FPA L E
Sbjct: 185 TTNYGKAWAAGDIVSCLIDLDDGTLSFCLNGVSLGTAFENLSRGLGMAYFPAISLSFKES 244
Query: 784 LKFNFGEEEFKFP 822
+ FNFG ++P
Sbjct: 245 VAFNFGSRPLRYP 257
>ref|NP_061955.1| probable ATP-dependent RNA helicase DDX56 [Homo sapiens].
Length = 547
Score = 65.1 bits (157), Expect = 9e-11
Identities = 30/61 (49%), Positives = 43/61 (70%)
Frame = +1
Query: 82 FSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQI 261
F MG+ P + QAV ++ W PT IQ ++IPL L G D+L A TGSGKT A++IP++Q+
Sbjct: 9 FEHMGLDPRLLQAVTDLGWSRPTLIQEKAIPLALEGKDLLARARTGSGKTAAYAIPMLQL 68
Query: 262 V 264
+
Sbjct: 69 L 69
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: 35,995,040
Number of extensions: 924759
Number of successful extensions: 2933
Number of sequences better than 1.0e-05: 25
Number of HSP's gapped: 2913
Number of HSP's successfully gapped: 26
Length of query: 318
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 215
Effective length of database: 14,901,872
Effective search space: 3203902480
Effective search space used: 3203902480
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-015149
(955 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_Chr03 190 1e-45
>Sscrofa_Chr03
|| Length = 144787322
Score = 190 bits (96), Expect = 1e-45
Identities = 115/120 (95%), Gaps = 1/120 (0%)
Strand = Plus / Minus
Query: 773 agaatgctgaactaaaatttaacttcggagaagaagaatttaagtttccaacaaaagacg 832
|||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 130217520 agaatgctgaactaaaatttaacttcggagaagaagaatttaagtttccaccaaaagacg 130217461
Query: 833 gttttgttgcccttt-caaggcatcggatagcttcgtttgccagtcacagcactcaggta 891
||||||||||||||| |||||||||||||||||||||| | ||||||||||||||||||
Sbjct: 130217460 gttttgttgccctttccaaggcatcggatagcttcgttgtcaagtcacagcactcaggta 130217401
Score = 190 bits (96), Expect = 1e-45
Identities = 115/120 (95%), Gaps = 1/120 (0%)
Strand = Plus / Plus
Query: 773 agaatgctgaactaaaatttaacttcggagaagaagaatttaagtttccaacaaaagacg 832
|||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 130461555 agaatgctgaactaaaatttaacttcggagaagaagaatttaagtttccaccaaaagacg 130461614
Query: 833 gttttgttgcccttt-caaggcatcggatagcttcgtttgccagtcacagcactcaggta 891
||||||||||||||| |||||||||||||||||||||| | ||||||||||||||||||
Sbjct: 130461615 gttttgttgccctttccaaggcatcggatagcttcgttgtcaagtcacagcactcaggta 130461674
Score = 176 bits (89), Expect = 1e-41
Identities = 89/89 (100%)
Strand = Plus / Plus
Query: 462 agggaaacactactatgaagtatcctgtcacgaccaaggattgtgcagggttggctggtc 521
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130457869 agggaaacactactatgaagtatcctgtcacgaccaaggattgtgcagggttggctggtc 130457928
Query: 522 ttctatgcaggcttccctagacctaggta 550
|||||||||||||||||||||||||||||
Sbjct: 130457929 ttctatgcaggcttccctagacctaggta 130457957
Score = 165 bits (83), Expect = 5e-38
Identities = 83/83 (100%)
Strand = Plus / Plus
Query: 382 attgggtcagatggtctttgttgtcaaagcagagaagtaaaggagtggcatggatgtaga 441
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130457553 attgggtcagatggtctttgttgtcaaagcagagaagtaaaggagtggcatggatgtaga 130457612
Query: 442 gctactaaaggattgacgaaagg 464
|||||||||||||||||||||||
Sbjct: 130457613 gctactaaaggattgacgaaagg 130457635
Score = 163 bits (82), Expect = 2e-37
Identities = 82/82 (100%)
Strand = Plus / Plus
Query: 544 ctaggtactgacaagtttggatttggctttggtggaacaggaaagaagtcccacaataaa 603
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130458522 ctaggtactgacaagtttggatttggctttggtggaacaggaaagaagtcccacaataaa 130458581
Query: 604 caatttgataattatggagagg 625
||||||||||||||||||||||
Sbjct: 130458582 caatttgataattatggagagg 130458603
Score = 159 bits (80), Expect = 3e-36
Identities = 87/88 (98%), Gaps = 1/88 (1%)
Strand = Plus / Plus
Query: 2 gcgccgctaccgcgcagcgtgtcggtgcagagggaggcagcgcagacgg-agtcgcggag 60
||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 130448235 gcgccgctaccgcgcagcgtgtcggtgcagagggaggcagcgcagacggtagtcgcggag 130448294
Query: 61 gaccgggcaaagatggcggccttctccg 88
||||||||||||||||||||||||||||
Sbjct: 130448295 gaccgggcaaagatggcggccttctccg 130448322
Score = 155 bits (78), Expect = 5e-35
Identities = 78/78 (100%)
Strand = Plus / Minus
Query: 697 gggaaagaccttggtctggcatttgaaataccaccacatatgaagaaccaagccctcttt 756
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130217708 gggaaagaccttggtctggcatttgaaataccaccacatatgaagaaccaagccctcttt 130217649
Query: 757 cccgcttgtgttttgaag 774
||||||||||||||||||
Sbjct: 130217648 cccgcttgtgttttgaag 130217631
Score = 155 bits (78), Expect = 5e-35
Identities = 78/78 (100%)
Strand = Plus / Plus
Query: 697 gggaaagaccttggtctggcatttgaaataccaccacatatgaagaaccaagccctcttt 756
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130461367 gggaaagaccttggtctggcatttgaaataccaccacatatgaagaaccaagccctcttt 130461426
Query: 757 cccgcttgtgttttgaag 774
||||||||||||||||||
Sbjct: 130461427 cccgcttgtgttttgaag 130461444
Score = 151 bits (76), Expect = 8e-34
Identities = 76/76 (100%)
Strand = Plus / Plus
Query: 623 aggaattcactatgcatgataccattggatgttacctagatatagataaaggccatgtca 682
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130459557 aggaattcactatgcatgataccattggatgttacctagatatagataaaggccatgtca 130459616
Query: 683 aattctccaaaaatgg 698
||||||||||||||||
Sbjct: 130459617 aattctccaaaaatgg 130459632
Score = 129 bits (65), Expect = 3e-27
Identities = 65/65 (100%)
Strand = Plus / Plus
Query: 141 cctcccaactgatatccaggctgagtcgatcccactgatcctgggaggaggtgatgtact 200
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130451751 cctcccaactgatatccaggctgagtcgatcccactgatcctgggaggaggtgatgtact 130451810
Query: 201 catgg 205
|||||
Sbjct: 130451811 catgg 130451815
Score = 119 bits (60), Expect = 3e-24
Identities = 60/60 (100%)
Strand = Plus / Plus
Query: 235 gctttcagtattccagttatccagatagtttatgaaactctgaaagaccaacaggaaggc 294
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130454039 gctttcagtattccagttatccagatagtttatgaaactctgaaagaccaacaggaaggc 130454098
Score = 107 bits (54), Expect = 1e-20
Identities = 67/70 (95%), Gaps = 1/70 (1%)
Strand = Plus / Plus
Query: 887 aggtaatgcgcaggtggctcaaacca-gtttctcccccatgctccgaaagctctcatcgt 945
||||||||||||||||||||| |||| |||||||||| ||||||||||||||||||||||
Sbjct: 130462311 aggtaatgcgcaggtggctcagaccaagtttctccccaatgctccgaaagctctcatcgt 130462370
Query: 946 ggaaccttcc 955
||||||||||
Sbjct: 130462371 ggaaccttcc 130462380
Score = 105 bits (53), Expect = 4e-20
Identities = 53/53 (100%)
Strand = Plus / Plus
Query: 88 gagatgggtgttatgcctgagattgcacaagccgtggaagagatggattggct 140
|||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130451145 gagatgggtgttatgcctgagattgcacaagccgtggaagagatggattggct 130451197
Score = 99.6 bits (50), Expect = 3e-18
Identities = 50/50 (100%)
Strand = Plus / Plus
Query: 330 agtgctgaacaaatggcaaatgaacccatacgatagaggatctgcttttg 379
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130455916 agtgctgaacaaatggcaaatgaacccatacgatagaggatctgcttttg 130455965
Score = 63.9 bits (32), Expect = 1e-07
Identities = 32/32 (100%)
Strand = Plus / Plus
Query: 204 ggctgcagaaacaggaagtggaaaaactggtg 235
||||||||||||||||||||||||||||||||
Sbjct: 130452746 ggctgcagaaacaggaagtggaaaaactggtg 130452777
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: 27,597,100
Number of extensions: 164
Number of successful extensions: 164
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 160
Number of HSP's successfully gapped: 15
Length of query: 955
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 934
Effective length of database: 2,808,413,156
Effective search space: 2623057887704
Effective search space used: 2623057887704
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)