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-003386
(798 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_001039485.1| retinoic acid receptor responder protein 2 p... 252 2e-67
>ref|NP_001039485.1| retinoic acid receptor responder protein 2 precursor [Bos taurus].
Length = 162
Score = 252 bits (644), Expect = 2e-67
Identities = 118/145 (81%), Positives = 131/145 (90%)
Frame = +3
Query: 204 GRAELTAAQLRGLQVALEEFHKHPPVQWAFRETGVNSAMDTPFPAGTFVRLEFKLQQTSC 383
GRAELT AQ RGLQVALEEFHKHPPV WAF+ T V++A DT FPAG FVRLEFKLQQTSC
Sbjct: 18 GRAELTTAQHRGLQVALEEFHKHPPVLWAFQVTSVDNAADTLFPAGQFVRLEFKLQQTSC 77
Query: 384 RKRDWKKAECKVKPNGRKRKCLACIKLNSEDKVLGRMVHCPIETQVQREPEERQEAQCSR 563
RK+DW+K +CKVKPNGRKRKCLACIKL+S+D+VLGRMVHCPI+TQVQRE ++ Q+AQCSR
Sbjct: 78 RKKDWRKEDCKVKPNGRKRKCLACIKLDSKDQVLGRMVHCPIQTQVQRELDDAQDAQCSR 137
Query: 564 VERAGEDPHSYYFPGQFAFFKALPP 638
VERAGEDPHSYY PGQFAF KAL P
Sbjct: 138 VERAGEDPHSYYLPGQFAFIKALSP 162
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: 31,767,638
Number of extensions: 940241
Number of successful extensions: 4970
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4961
Number of HSP's successfully gapped: 1
Length of query: 266
Length of database: 17,681,374
Length adjustment: 100
Effective length of query: 166
Effective length of database: 14,372,574
Effective search space: 2385847284
Effective search space used: 2385847284
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 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-003386
(798 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_860208.1| PREDICTED: similar to retinoic acid receptor re... 280 1e-75
Alignment gi|XP_532755.1| PREDICTED: similar to retinoic acid receptor re... 280 1e-75
>ref|XP_860208.1| PREDICTED: similar to retinoic acid receptor responder (tazarotene
induced) 2 isoform 2 [Canis familiaris].
Length = 163
Score = 280 bits (715), Expect = 1e-75
Identities = 131/146 (89%), Positives = 136/146 (93%)
Frame = +3
Query: 204 GRAELTAAQLRGLQVALEEFHKHPPVQWAFRETGVNSAMDTPFPAGTFVRLEFKLQQTSC 383
GRAELTAAQ RGLQVALEEFHKHPPVQWAF+ET V+ A DTPFPAGTFVRLEFKLQQTSC
Sbjct: 18 GRAELTAAQQRGLQVALEEFHKHPPVQWAFKETSVDRAEDTPFPAGTFVRLEFKLQQTSC 77
Query: 384 RKRDWKKAECKVKPNGRKRKCLACIKLNSEDKVLGRMVHCPIETQVQREPEERQEAQCSR 563
RK+DWKKA CK+KPNGRKRKCLACIKLNS DKVLGRMVHCPI TQV +EPEE QEAQCSR
Sbjct: 78 RKKDWKKANCKIKPNGRKRKCLACIKLNSADKVLGRMVHCPIHTQVHQEPEEHQEAQCSR 137
Query: 564 VERAGEDPHSYYFPGQFAFFKALPPS 641
VERAGEDPHSYYFPGQFAFFKA PPS
Sbjct: 138 VERAGEDPHSYYFPGQFAFFKAPPPS 163
>ref|XP_532755.1| PREDICTED: similar to retinoic acid receptor responder (tazarotene
induced) 2 isoform 1 [Canis familiaris].
Length = 163
Score = 280 bits (715), Expect = 1e-75
Identities = 131/146 (89%), Positives = 136/146 (93%)
Frame = +3
Query: 204 GRAELTAAQLRGLQVALEEFHKHPPVQWAFRETGVNSAMDTPFPAGTFVRLEFKLQQTSC 383
GRAELTAAQ RGLQVALEEFHKHPPVQWAF+ET V+ A DTPFPAGTFVRLEFKLQQTSC
Sbjct: 18 GRAELTAAQQRGLQVALEEFHKHPPVQWAFKETSVDRAEDTPFPAGTFVRLEFKLQQTSC 77
Query: 384 RKRDWKKAECKVKPNGRKRKCLACIKLNSEDKVLGRMVHCPIETQVQREPEERQEAQCSR 563
RK+DWKKA CK+KPNGRKRKCLACIKLNS DKVLGRMVHCPI TQV +EPEE QEAQCSR
Sbjct: 78 RKKDWKKANCKIKPNGRKRKCLACIKLNSADKVLGRMVHCPIHTQVHQEPEEHQEAQCSR 137
Query: 564 VERAGEDPHSYYFPGQFAFFKALPPS 641
VERAGEDPHSYYFPGQFAFFKA PPS
Sbjct: 138 VERAGEDPHSYYFPGQFAFFKAPPPS 163
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: 33,044,943
Number of extensions: 952071
Number of successful extensions: 5194
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 5190
Number of HSP's successfully gapped: 2
Length of query: 266
Length of database: 18,874,504
Length adjustment: 101
Effective length of query: 165
Effective length of database: 15,507,568
Effective search space: 2558748720
Effective search space used: 2558748720
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-003386
(798 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_002880.1| retinoic acid receptor responder protein 2 prec... 263 1e-70
>ref|NP_002880.1| retinoic acid receptor responder protein 2 precursor [Homo
sapiens].
Length = 163
Score = 263 bits (672), Expect = 1e-70
Identities = 125/146 (85%), Positives = 131/146 (89%)
Frame = +3
Query: 204 GRAELTAAQLRGLQVALEEFHKHPPVQWAFRETGVNSAMDTPFPAGTFVRLEFKLQQTSC 383
G AELT AQ RGLQVALEEFHKHPPVQWAF+ET V SA+DTPFPAG FVRLEFKLQQTSC
Sbjct: 18 GVAELTEAQRRGLQVALEEFHKHPPVQWAFQETSVESAVDTPFPAGIFVRLEFKLQQTSC 77
Query: 384 RKRDWKKAECKVKPNGRKRKCLACIKLNSEDKVLGRMVHCPIETQVQREPEERQEAQCSR 563
RKRDWKK ECKV+PNGRKRKCLACIKL SEDKVLGR+VHCPIETQV RE EE QE QC R
Sbjct: 78 RKRDWKKPECKVRPNGRKRKCLACIKLGSEDKVLGRLVHCPIETQVLREAEEHQETQCLR 137
Query: 564 VERAGEDPHSYYFPGQFAFFKALPPS 641
V+RAGEDPHS+YFPGQFAF KALP S
Sbjct: 138 VQRAGEDPHSFYFPGQFAFSKALPRS 163
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: 32,190,411
Number of extensions: 919285
Number of successful extensions: 5019
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4995
Number of HSP's successfully gapped: 1
Length of query: 266
Length of database: 18,297,164
Length adjustment: 101
Effective length of query: 165
Effective length of database: 14,967,800
Effective search space: 2469687000
Effective search space used: 2469687000
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-003386
(798 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_082128.1| retinoic acid receptor responder protein 2 prec... 196 2e-50
>ref|NP_082128.1| retinoic acid receptor responder protein 2 precursor [Mus
musculus].
Length = 162
Score = 196 bits (497), Expect = 2e-50
Identities = 90/140 (64%), Positives = 113/140 (80%)
Frame = +3
Query: 213 ELTAAQLRGLQVALEEFHKHPPVQWAFRETGVNSAMDTPFPAGTFVRLEFKLQQTSCRKR 392
EL+ Q R LQVALEEFHKHPPVQ AF+E GV+ A + F AGTFVRLEFKLQQT+C K+
Sbjct: 23 ELSETQRRSLQVALEEFHKHPPVQLAFQEIGVDRAEEVLFSAGTFVRLEFKLQQTNCPKK 82
Query: 393 DWKKAECKVKPNGRKRKCLACIKLNSEDKVLGRMVHCPIETQVQREPEERQEAQCSRVER 572
DWKK EC +KPNGR+RKCLACIK++ + K+LGR+VHCPI +++ P++ QE QC ++ +
Sbjct: 83 DWKKPECTIKPNGRRRKCLACIKMDPKGKILGRIVHCPI---LKQGPQDPQELQCIKIAQ 139
Query: 573 AGEDPHSYYFPGQFAFFKAL 632
AGEDPH Y+ PGQFAF +AL
Sbjct: 140 AGEDPHGYFLPGQFAFSRAL 159
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: 26,822,159
Number of extensions: 748408
Number of successful extensions: 3693
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3682
Number of HSP's successfully gapped: 1
Length of query: 266
Length of database: 15,617,559
Length adjustment: 99
Effective length of query: 167
Effective length of database: 12,643,995
Effective search space: 2111547165
Effective search space used: 2111547165
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 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-003386
(798 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_001116658.1| retinoic acid receptor responder protein 2 [... 308 3e-84
>ref|NP_001116658.1| retinoic acid receptor responder protein 2 [Sus scrofa].
Length = 163
Score = 308 bits (788), Expect = 3e-84
Identities = 146/146 (100%), Positives = 146/146 (100%)
Frame = +3
Query: 204 GRAELTAAQLRGLQVALEEFHKHPPVQWAFRETGVNSAMDTPFPAGTFVRLEFKLQQTSC 383
GRAELTAAQLRGLQVALEEFHKHPPVQWAFRETGVNSAMDTPFPAGTFVRLEFKLQQTSC
Sbjct: 18 GRAELTAAQLRGLQVALEEFHKHPPVQWAFRETGVNSAMDTPFPAGTFVRLEFKLQQTSC 77
Query: 384 RKRDWKKAECKVKPNGRKRKCLACIKLNSEDKVLGRMVHCPIETQVQREPEERQEAQCSR 563
RKRDWKKAECKVKPNGRKRKCLACIKLNSEDKVLGRMVHCPIETQVQREPEERQEAQCSR
Sbjct: 78 RKRDWKKAECKVKPNGRKRKCLACIKLNSEDKVLGRMVHCPIETQVQREPEERQEAQCSR 137
Query: 564 VERAGEDPHSYYFPGQFAFFKALPPS 641
VERAGEDPHSYYFPGQFAFFKALPPS
Sbjct: 138 VERAGEDPHSYYFPGQFAFFKALPPS 163
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: 20,732,992
Number of extensions: 630667
Number of successful extensions: 3404
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3388
Number of HSP's successfully gapped: 1
Length of query: 266
Length of database: 11,343,932
Length adjustment: 97
Effective length of query: 169
Effective length of database: 8,928,923
Effective search space: 1508987987
Effective search space used: 1508987987
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-003386
(798 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gb|GL892911.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 396 e-108
>gb|GL892911.1| Sus scrofa unplaced genomic scaffold chrU_scaffold1729
Length = 277118
Score = 396 bits (200), Expect = e-108
Identities = 200/200 (100%)
Strand = Plus / Minus
Query: 127 aggatcagggtgatcaaggtgaagccatgtggcagctgctgctcccgctggccctgtggc 186
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 276082 aggatcagggtgatcaaggtgaagccatgtggcagctgctgctcccgctggccctgtggc 276023
Query: 187 tgggcaccatgggcttgggcagggctgagctcacagcggcccagctccgtggcctgcagg 246
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 276022 tgggcaccatgggcttgggcagggctgagctcacagcggcccagctccgtggcctgcagg 275963
Query: 247 tggccctggaggagttccacaagcacccacccgtgcagtgggccttccgggagactggtg 306
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 275962 tggccctggaggagttccacaagcacccacccgtgcagtgggccttccgggagactggtg 275903
Query: 307 tgaacagtgccatggacacg 326
||||||||||||||||||||
Sbjct: 275902 tgaacagtgccatggacacg 275883
Score = 228 bits (115), Expect = 4e-57
Identities = 121/123 (98%)
Strand = Plus / Minus
Query: 654 gaacttcacccggcttcctggaagctgcgggaggacaccagtgaaggccgcctggccctc 713
|||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 274051 gaacttcacccggcttcctggaagctgcgggaggacacgggtgaaggccgcctggccctc 273992
Query: 714 ccctctctgcgcccagggagggccacccccattatcactgagctaataaaactgctctgc 773
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 273991 ccctctctgcgcccagggagggccacccccattatcactgagctaataaaactgctctgc 273932
Query: 774 tga 776
|||
Sbjct: 273931 tga 273929
Score = 210 bits (106), Expect = 9e-52
Identities = 106/106 (100%)
Strand = Plus / Minus
Query: 326 gcccttcccggccgggacctttgtgaggctggaatttaagctccagcagaccagctgccg 385
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 275590 gcccttcccggccgggacctttgtgaggctggaatttaagctccagcagaccagctgccg 275531
Query: 386 gaagagggactggaagaaagctgagtgcaaggtcaagcccaacggg 431
||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 275530 gaagagggactggaagaaagctgagtgcaaggtcaagcccaacggg 275485
Score = 93.7 bits (47), Expect = 1e-16
Identities = 47/47 (100%)
Strand = Plus / Minus
Query: 608 acaatttgccttcttcaaagccttgccccccagctgaggccctgctg 654
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 274361 acaatttgccttcttcaaagccttgccccccagctgaggccctgctg 274315
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: 21,142,336
Number of extensions: 499
Number of successful extensions: 499
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 499
Number of HSP's successfully gapped: 4
Length of query: 798
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 777
Effective length of database: 2,808,413,156
Effective search space: 2182137022212
Effective search space used: 2182137022212
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 17 (34.2 bits)
S2: 29 (58.0 bits)