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-001979
(1679 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_001068898.1| retinoic acid receptor responder (tazarotene... 425 e-119
Alignment gi|NP_001073809.1| latexin [Bos taurus]. 120 4e-27
>ref|NP_001068898.1| retinoic acid receptor responder (tazarotene induced) 1 [Bos taurus].
Length = 289
Score = 425 bits (1093), Expect = e-119
Identities = 214/291 (73%), Positives = 236/291 (81%), Gaps = 1/291 (0%)
Frame = +3
Query: 237 MQPSRPSLFAPRPGNRPPATRXXXXXXXXXXXXXXXXXXXSRTPEDSEWRQDAELPQGLL 416
MQ R L APRPG+ PA + S PEDS W QDAE LL
Sbjct: 1 MQLRRQPLSAPRPGDTRPAAQRLAVPLLLLLALQGAAA--SGGPEDSGWLQDAEPSSRLL 58
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL 596
SQAARAALHFFNFRA SPSAL+VLA V +G +W+NQ+KE K DLVFT E Y+ EEG+ RL
Sbjct: 59 SQAARAALHFFNFRAASPSALQVLANVLDGRSWVNQKKEYKFDLVFTTEFYSAEEGEKRL 118
Query: 597 GKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPDSHGH 776
GKCSAQVFFRNEKPRPAVNVTCTQL+++++RQEEDYQLY+ MKQL +PL+ VSIPDSHG+
Sbjct: 119 GKCSAQVFFRNEKPRPAVNVTCTQLVKKERRQEEDYQLYKLMKQLKSPLNAVSIPDSHGY 178
Query: 777 IDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLLHEFS 956
I PSLRPIWDLAFLGSSYVMW+K+T FLHYY+SQ+SSVKQWKTNDDAIDFDYTVLLHEFS
Sbjct: 179 IAPSLRPIWDLAFLGSSYVMWQKSTPFLHYYMSQISSVKQWKTNDDAIDFDYTVLLHEFS 238
Query: 957 TQEIIPCRIHLVWYPGKPLKVKYHCQELQTP-EASGTEEGSAVAPIELSNF 1106
TQEIIPCRIHLVWYP KPLKVKYHCQE QTP EASGTEEGSAVA ELSNF
Sbjct: 239 TQEIIPCRIHLVWYPSKPLKVKYHCQERQTPEEASGTEEGSAVALTELSNF 289
>ref|NP_001073809.1| latexin [Bos taurus].
Length = 222
Score = 120 bits (301), Expect = 4e-27
Identities = 66/206 (32%), Positives = 117/206 (56%), Gaps = 2/206 (0%)
Frame = +3
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL 596
++AA N++ G+P L ++ V++ S + K L F+ E +E
Sbjct: 11 ARAASVVESCINYQQGTPHKLFLVQTVEQVSLEDIPGRGHKYRLKFSVEEIIQKEVTVN- 69
Query: 597 GKCSAQVFF--RNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPDSH 770
C+A+V + + P VN T + K EED Y+ +K + PLD +IPDS
Sbjct: 70 --CTAEVLYPPTGQDTAPEVNFTFEGEIG-KNPDEEDNTFYQRLKSMKEPLDAQNIPDSF 126
Query: 771 GHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLLHE 950
G++ P ++P+ LA++ S Y++W+ +T+ Y ++++ +VKQ + NDD I+ DYT+LLH+
Sbjct: 127 GNVPPEMKPVRHLAWVASGYIIWQNSTENTWYKMAKIQTVKQVQRNDDFIELDYTILLHD 186
Query: 951 FSTQEIIPCRIHLVWYPGKPLKVKYH 1028
++QEIIP ++ ++W+P KVK++
Sbjct: 187 IASQEIIPWQMQVLWHPQYGTKVKHN 212
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: 47,500,363
Number of extensions: 1410732
Number of successful extensions: 4305
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 4291
Number of HSP's successfully gapped: 2
Length of query: 559
Length of database: 17,681,374
Length adjustment: 107
Effective length of query: 452
Effective length of database: 14,140,958
Effective search space: 6391713016
Effective search space used: 6391713016
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 36 (18.5 bits)
Search to 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-001979
(1679 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_855132.1| PREDICTED: similar to retinoic acid receptor re... 279 7e-75
Alignment gi|XP_852979.1| PREDICTED: similar to latexin [Canis familiaris]. 112 8e-25
>ref|XP_855132.1| PREDICTED: similar to retinoic acid receptor responder (tazarotene
induced) 1 isoform 1 [Canis familiaris].
Length = 184
Score = 279 bits (713), Expect = 7e-75
Identities = 130/173 (75%), Positives = 149/173 (86%), Gaps = 1/173 (0%)
Frame = +3
Query: 591 RLGKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPDSH 770
RLG+CSA+V FR++KPRPAVNVTCT+ +E + + ED+ LY+ K+L PL SIP+SH
Sbjct: 12 RLGRCSARVVFRHQKPRPAVNVTCTRFMETSRSRREDFLLYKRAKRLRAPLGATSIPNSH 71
Query: 771 GHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLLHE 950
G IDPSLRPIWDLAFLGSSYV+WE+TTQ LHYY++QLSSV QWKTN+DAIDFDY VLLHE
Sbjct: 72 GWIDPSLRPIWDLAFLGSSYVLWERTTQTLHYYMAQLSSVNQWKTNEDAIDFDYMVLLHE 131
Query: 951 FSTQEIIPCRIHLVWYPGKPLKVKYHCQELQT-PEASGTEEGSAVAPIELSNF 1106
FSTQEIIPCRIHLVWYPGKPLKVKYHCQEL T E SGTEEGSAVAP + +NF
Sbjct: 132 FSTQEIIPCRIHLVWYPGKPLKVKYHCQELHTAQEGSGTEEGSAVAPTQPNNF 184
>ref|XP_852979.1| PREDICTED: similar to latexin [Canis familiaris].
Length = 222
Score = 112 bits (281), Expect = 8e-25
Identities = 64/206 (31%), Positives = 113/206 (54%), Gaps = 2/206 (0%)
Frame = +3
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL 596
++AA A + N++ G+P + + V + S K K L F+ E ++
Sbjct: 11 ARAASVAENCINYQQGTPHKVFQVQTVAQASVQDIPEKGHKYCLKFSVEEIIQKQVTLN- 69
Query: 597 GKCSAQVFF--RNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPDSH 770
C+A+V + + P VN T + K +ED Y+ +K + PL+ +IPD
Sbjct: 70 --CTAEVLYPLTGQDTAPEVNFTFEGEIG-KNPDKEDNTFYQRLKSMKEPLEAQNIPDGL 126
Query: 771 GHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLLHE 950
G++ P + P+ LA++ YV+W+ +T+ Y ++++ VKQ + NDD I+ DYTVLLH+
Sbjct: 127 GNVPPEMEPVRHLAWVACGYVIWQNSTENTWYKMAKIHRVKQVQRNDDFIELDYTVLLHD 186
Query: 951 FSTQEIIPCRIHLVWYPGKPLKVKYH 1028
++QEIIP ++ ++W+P KVK++
Sbjct: 187 IASQEIIPWQMQVLWHPQYGTKVKHN 212
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: 48,004,512
Number of extensions: 1173486
Number of successful extensions: 4379
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 4361
Number of HSP's successfully gapped: 2
Length of query: 559
Length of database: 18,874,504
Length adjustment: 108
Effective length of query: 451
Effective length of database: 15,274,216
Effective search space: 6888671416
Effective search space used: 6888671416
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 36 (18.5 bits)
Search to RefSeqHP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-001979
(1679 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_996846.1| retinoic acid receptor responder protein 1 isof... 402 e-112
Alignment gi|NP_002879.2| retinoic acid receptor responder protein 1 isof... 271 2e-72
Alignment gi|NP_064554.3| latexin [Homo sapiens]. 115 1e-25
>ref|NP_996846.1| retinoic acid receptor responder protein 1 isoform 1 [Homo sapiens].
Length = 294
Score = 402 bits (1034), Expect = e-112
Identities = 204/295 (69%), Positives = 229/295 (77%), Gaps = 5/295 (1%)
Frame = +3
Query: 237 MQPSRPSLFAPRPGNRPPATRXXXXXXXXXXXXXXXXXXXSRTPEDSEWRQDAELPQGLL 416
MQP R L AP G R P S P+D QDA +P+ LL
Sbjct: 1 MQPRRQRLPAPWSGPRGPRPTAPLLALLLLLAPVAAPAG-SGDPDDPGQPQDAGVPRRLL 59
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTE----EG 584
QAARAALHFFNFR+GSPSALRVLAEVQEG AWIN ++ KV +VF+ E YN E EG
Sbjct: 60 QQAARAALHFFNFRSGSPSALRVLAEVQEGRAWINPKEGCKVHVVFSTERYNPESLLQEG 119
Query: 585 KARLGKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPD 764
+ RLGKCSA+VFF+N+KPRP +NVTCT+L+E+KKRQ+EDY LY+ MKQL PL++VSIPD
Sbjct: 120 EGRLGKCSARVFFKNQKPRPTINVTCTRLIEKKKRQQEDYLLYKQMKQLKNPLEIVSIPD 179
Query: 765 SHGHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLL 944
+HGHIDPSLR IWDLAFLGSSYVMWE TTQ HYY++QL+SV+QWKTNDD IDFDYTVLL
Sbjct: 180 NHGHIDPSLRLIWDLAFLGSSYVMWEMTTQVSHYYLAQLTSVRQWKTNDDTIDFDYTVLL 239
Query: 945 HEFSTQEIIPCRIHLVWYPGKPLKVKYHCQELQTP-EASGTEEGSAVAPIELSNF 1106
HE STQEIIPCRIHLVWYPGKPLKVKYHCQELQTP EASGTEEGSAV P ELSNF
Sbjct: 240 HELSTQEIIPCRIHLVWYPGKPLKVKYHCQELQTPEEASGTEEGSAVVPTELSNF 294
>ref|NP_002879.2| retinoic acid receptor responder protein 1 isoform 2 [Homo
sapiens].
Length = 228
Score = 271 bits (692), Expect = 2e-72
Identities = 139/225 (61%), Positives = 164/225 (72%), Gaps = 4/225 (1%)
Frame = +3
Query: 237 MQPSRPSLFAPRPGNRPPATRXXXXXXXXXXXXXXXXXXXSRTPEDSEWRQDAELPQGLL 416
MQP R L AP G R P S P+D QDA +P+ LL
Sbjct: 1 MQPRRQRLPAPWSGPRGPRPTAPLLALLLLLAPVAAPAG-SGDPDDPGQPQDAGVPRRLL 59
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTE----EG 584
QAARAALHFFNFR+GSPSALRVLAEVQEG AWIN ++ KV +VF+ E YN E EG
Sbjct: 60 QQAARAALHFFNFRSGSPSALRVLAEVQEGRAWINPKEGCKVHVVFSTERYNPESLLQEG 119
Query: 585 KARLGKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPD 764
+ RLGKCSA+VFF+N+KPRP +NVTCT+L+E+KKRQ+EDY LY+ MKQL PL++VSIPD
Sbjct: 120 EGRLGKCSARVFFKNQKPRPTINVTCTRLIEKKKRQQEDYLLYKQMKQLKNPLEIVSIPD 179
Query: 765 SHGHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQW 899
+HGHIDPSLR IWDLAFLGSSYVMWE TTQ HYY++QL+SV+QW
Sbjct: 180 NHGHIDPSLRLIWDLAFLGSSYVMWEMTTQVSHYYLAQLTSVRQW 224
>ref|NP_064554.3| latexin [Homo sapiens].
Length = 222
Score = 115 bits (288), Expect = 1e-25
Identities = 63/205 (30%), Positives = 114/205 (55%), Gaps = 1/205 (0%)
Frame = +3
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL 596
S+AA A ++ N++ G+P + + +V++ S + K L F E ++ K
Sbjct: 11 SRAALVAQNYINYQQGTPHRVFEVQKVKQASMEDIPGRGHKYHLKFAVEEIIQKQVKVN- 69
Query: 597 GKCSAQVFFRNEKPRPAVNVTCTQLLERKKR-QEEDYQLYRHMKQLNTPLDVVSIPDSHG 773
C+A+V + + A V T E K EED Y+ +K + PL+ +IPD+ G
Sbjct: 70 --CTAEVLYPSTGQETAPEVNFTFEGETGKNPDEEDNTFYQRLKSMKEPLEAQNIPDNFG 127
Query: 774 HIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLLHEF 953
++ P + + LA++ Y++W+ +T+ Y + ++ +VKQ + NDD I+ DYT+LLH
Sbjct: 128 NVSPEMTLVLHLAWVACGYIIWQNSTEDTWYKMVKIQTVKQVQRNDDFIELDYTILLHNI 187
Query: 954 STQEIIPCRIHLVWYPGKPLKVKYH 1028
++QEIIP ++ ++W+P KVK++
Sbjct: 188 ASQEIIPWQMQVLWHPQYGTKVKHN 212
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: 46,999,391
Number of extensions: 1127529
Number of successful extensions: 4165
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 4149
Number of HSP's successfully gapped: 3
Length of query: 559
Length of database: 18,297,164
Length adjustment: 108
Effective length of query: 451
Effective length of database: 14,737,052
Effective search space: 6646410452
Effective search space used: 6646410452
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 36 (18.5 bits)
Search to RefSeqMP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-001979
(1679 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_001158235.1| retinoic acid receptor responder (tazarotene... 372 e-103
Alignment gi|NP_058033.2| latexin [Mus musculus]. 119 5e-27
>ref|NP_001158235.1| retinoic acid receptor responder (tazarotene induced) 1 [Mus
musculus].
Length = 283
Score = 372 bits (955), Expect = e-103
Identities = 185/254 (72%), Positives = 212/254 (83%), Gaps = 7/254 (2%)
Frame = +3
Query: 366 PEDSEW----RQDAE--LPQGLLSQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQR 527
P D E+ RQ A LP+G+L AARAALHFFNFRAGSPSALRVLA VQEG AW+N +
Sbjct: 30 PADLEYTEVPRQPAAVGLPRGILQLAARAALHFFNFRAGSPSALRVLATVQEGRAWVNPQ 89
Query: 528 KERKVDLVFTAELYNTEEGKARLGKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQ 707
+ +VDLVF+ E YN E+ RLGKCSA+VFF+NEKPRPAVNVTC +L ++ KRQE+DY+
Sbjct: 90 EGCEVDLVFSTEQYNPEQEGERLGKCSARVFFKNEKPRPAVNVTCARLFDKVKRQEKDYR 149
Query: 708 LYRHMKQLNTPLDVVSIPDSHGHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSS 887
LY+ MKQL TPL +SIPDSHGHID SLRP+WDLAFLGSSYVMWEKTTQ LHYY+ QLSS
Sbjct: 150 LYKQMKQLKTPLHSISIPDSHGHIDNSLRPLWDLAFLGSSYVMWEKTTQVLHYYLVQLSS 209
Query: 888 VKQWKTNDDAIDFDYTVLLHEFSTQEIIPCRIHLVWYPGKPLKVKYHCQELQTP-EASGT 1064
V++ KT+DD+IDFD+TVLLHEFSTQEIIPCRIHLVWYPGKPLKV YHCQE Q+P EASGT
Sbjct: 210 VERLKTDDDSIDFDFTVLLHEFSTQEIIPCRIHLVWYPGKPLKVNYHCQEQQSPEEASGT 269
Query: 1065 EEGSAVAPIELSNF 1106
E SA+AP E NF
Sbjct: 270 MEASAMAPPEFGNF 283
>ref|NP_058033.2| latexin [Mus musculus].
Length = 222
Score = 119 bits (299), Expect = 5e-27
Identities = 67/206 (32%), Positives = 115/206 (55%), Gaps = 2/206 (0%)
Frame = +3
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL 596
S+AA A + N++ G+P L ++ VQ+ S + K L F+ E ++
Sbjct: 11 SRAASVAENCINYQQGTPHKLFLVQTVQQASKEDIPGRGHKYHLKFSVEEIIQKQVTVN- 69
Query: 597 GKCSAQVFF--RNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPDSH 770
C+A+V + + P VN T + K EED Y+ + L PL+ IPD+
Sbjct: 70 --CTAEVLYPQMGQGSAPEVNFTFEGEIG-KNPDEEDNTFYQSLMSLKRPLEAQDIPDNF 126
Query: 771 GHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLLHE 950
G++ P ++P+ LA++ YVMW+ +T+ Y + ++ +VKQ + NDD I+ DYT+LLH+
Sbjct: 127 GNVSPQMKPVQHLAWVACGYVMWQNSTEDTWYKMLKIQTVKQVQRNDDFIELDYTILLHD 186
Query: 951 FSTQEIIPCRIHLVWYPGKPLKVKYH 1028
++QEIIP ++ ++W+P KVK++
Sbjct: 187 IASQEIIPWQMQVLWHPQYGTKVKHN 212
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: 40,129,065
Number of extensions: 969213
Number of successful extensions: 3343
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 3330
Number of HSP's successfully gapped: 2
Length of query: 559
Length of database: 15,617,559
Length adjustment: 107
Effective length of query: 452
Effective length of database: 12,403,707
Effective search space: 5606475564
Effective search space used: 5606475564
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 36 (18.5 bits)
Search to 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-001979
(1679 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_003358693.1| PREDICTED: retinoic acid receptor responder ... 552 e-157
Alignment gi|XP_003358695.1| PREDICTED: retinoic acid receptor responder ... 543 e-154
Alignment gi|XP_003358694.1| PREDICTED: retinoic acid receptor responder ... 311 9e-85
Alignment gi|XP_003358692.1| PREDICTED: latexin-like [Sus scrofa]. 115 7e-26
>ref|XP_003358693.1| PREDICTED: retinoic acid receptor responder protein 1-like isoform 1
[Sus scrofa].
Length = 290
Score = 552 bits (1422), Expect = e-157
Identities = 271/290 (93%), Positives = 271/290 (93%)
Frame = +3
Query: 237 MQPSRPSLFAPRPGNRPPATRXXXXXXXXXXXXXXXXXXXSRTPEDSEWRQDAELPQGLL 416
MQPSRPSLFAPRPGNRPPATR SRTPEDSEWRQDAELPQGLL
Sbjct: 1 MQPSRPSLFAPRPGNRPPATRLLALLLLLALQAAAAAPAGSRTPEDSEWRQDAELPQGLL 60
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL 596
SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL
Sbjct: 61 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL 120
Query: 597 GKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPDSHGH 776
GKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPDSHGH
Sbjct: 121 GKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPDSHGH 180
Query: 777 IDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLLHEFS 956
IDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLLHEFS
Sbjct: 181 IDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLLHEFS 240
Query: 957 TQEIIPCRIHLVWYPGKPLKVKYHCQELQTPEASGTEEGSAVAPIELSNF 1106
TQEIIPCRIHLVWYPGKPLKVKYHCQELQTPEASGTEEGSAVAPIELSNF
Sbjct: 241 TQEIIPCRIHLVWYPGKPLKVKYHCQELQTPEASGTEEGSAVAPIELSNF 290
>ref|XP_003358695.1| PREDICTED: retinoic acid receptor responder protein 1-like isoform 3
[Sus scrofa].
Length = 302
Score = 543 bits (1399), Expect = e-154
Identities = 271/302 (89%), Positives = 271/302 (89%), Gaps = 12/302 (3%)
Frame = +3
Query: 237 MQPSRPSLFAPRPGNRPPATRXXXXXXXXXXXXXXXXXXXSRTPEDSEWRQDAELPQGLL 416
MQPSRPSLFAPRPGNRPPATR SRTPEDSEWRQDAELPQGLL
Sbjct: 1 MQPSRPSLFAPRPGNRPPATRLLALLLLLALQAAAAAPAGSRTPEDSEWRQDAELPQGLL 60
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTE------ 578
SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTE
Sbjct: 61 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEVRTILI 120
Query: 579 ------EGKARLGKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTP 740
EGKARLGKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTP
Sbjct: 121 PESLFQEGKARLGKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTP 180
Query: 741 LDVVSIPDSHGHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAI 920
LDVVSIPDSHGHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAI
Sbjct: 181 LDVVSIPDSHGHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAI 240
Query: 921 DFDYTVLLHEFSTQEIIPCRIHLVWYPGKPLKVKYHCQELQTPEASGTEEGSAVAPIELS 1100
DFDYTVLLHEFSTQEIIPCRIHLVWYPGKPLKVKYHCQELQTPEASGTEEGSAVAPIELS
Sbjct: 241 DFDYTVLLHEFSTQEIIPCRIHLVWYPGKPLKVKYHCQELQTPEASGTEEGSAVAPIELS 300
Query: 1101 NF 1106
NF
Sbjct: 301 NF 302
>ref|XP_003358694.1| PREDICTED: retinoic acid receptor responder protein 1-like isoform
2 [Sus scrofa].
Length = 178
Score = 311 bits (796), Expect = 9e-85
Identities = 156/177 (88%), Positives = 158/177 (89%)
Frame = +3
Query: 237 MQPSRPSLFAPRPGNRPPATRXXXXXXXXXXXXXXXXXXXSRTPEDSEWRQDAELPQGLL 416
MQPSRPSLFAPRPGNRPPATR SRTPEDSEWRQDAELPQGLL
Sbjct: 1 MQPSRPSLFAPRPGNRPPATRLLALLLLLALQAAAAAPAGSRTPEDSEWRQDAELPQGLL 60
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL 596
SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL
Sbjct: 61 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL 120
Query: 597 GKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPDS 767
GKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIP++
Sbjct: 121 GKCSAQVFFRNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPEN 177
>ref|XP_003358692.1| PREDICTED: latexin-like [Sus scrofa].
Length = 222
Score = 115 bits (288), Expect = 7e-26
Identities = 64/206 (31%), Positives = 116/206 (56%), Gaps = 2/206 (0%)
Frame = +3
Query: 417 SQAARAALHFFNFRAGSPSALRVLAEVQEGSAWINQRKERKVDLVFTAELYNTEEGKARL 596
S+AA A N++ G+P L ++ V++ S K K L F+ E ++
Sbjct: 11 SRAASVAESCINYQQGTPHKLFLVQTVKQASLEDIPGKGHKYRLKFSVEEIIQKQVTVN- 69
Query: 597 GKCSAQVFF--RNEKPRPAVNVTCTQLLERKKRQEEDYQLYRHMKQLNTPLDVVSIPDSH 770
C+A+V + + P VN T + K EED Y+ +K + PL+ +IPDS
Sbjct: 70 --CTAEVLYPPMGQDSAPEVNFTFEGEIG-KNPDEEDNTFYQRLKSMKEPLEAQNIPDSF 126
Query: 771 GHIDPSLRPIWDLAFLGSSYVMWEKTTQFLHYYVSQLSSVKQWKTNDDAIDFDYTVLLHE 950
G++ ++P+ LA++ Y++W+ +T+ Y ++++ +VKQ + NDD I+ DYT+LLH+
Sbjct: 127 GNVPLEMKPVRHLAWVACGYIIWQNSTENTWYKMAKIQTVKQVQRNDDFIELDYTILLHD 186
Query: 951 FSTQEIIPCRIHLVWYPGKPLKVKYH 1028
++QE+IP ++ ++W+P KVK++
Sbjct: 187 IASQEMIPWQMQVLWHPQYGTKVKHN 212
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: 33,110,875
Number of extensions: 1337422
Number of successful extensions: 2834
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 2814
Number of HSP's successfully gapped: 4
Length of query: 559
Length of database: 11,343,932
Length adjustment: 104
Effective length of query: 455
Effective length of database: 8,754,644
Effective search space: 3983363020
Effective search space used: 3983363020
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to Sscrofa10_2
BLASTN 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-001979
(1679 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 860 0.0
>Sscrofa_Chr13
|| Length = 218635234
Score = 860 bits (434), Expect = 0.0
Identities = 487/513 (94%)
Strand = Plus / Minus
Query: 3 acctcgcctagcctagccgcgcggcagagacgccgagcccgggggagttgggcgggtcgg 62
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106798833 acctcgcctagcctagccgcgcggcagagacgccgagcccgggggagttgggcgggtcgg 106798774
Query: 63 aggggcccaggggctgtggaagcggcgacagggcgccatcgagccaggacccagattccc 122
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106798773 aggggcccaggggctgtggaagcggcgacagggcgccatcgagccaggacccagattccc 106798714
Query: 123 tccagctggccacccagggggcggagggaggggcccgggcgtacttaattcccagaacac 182
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106798713 tccagctggccacccagggggcggagggaggggcccgggcgtacttaattcccagaacac 106798654
Query: 183 tggcgccgcccgccaggagtcggggcccgtcgagcgccgcgccagctcacgaccatgcag 242
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106798653 tggcgccgcccgccaggagtcggggcccgtcgagcgccgcgccagctcacgaccatgcag 106798594
Query: 243 cccagccgaccatcgcttttcgctccccggccggggaaccggccccctgccacccggctg 302
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106798593 cccagccgaccatcgcttttcgctccccggccggggaaccggccccctgccacccggctg 106798534
Query: 303 ctagcgcttctgctgctgctcgcccttcannnnnnnnnnnnnnnnnnnnnnnnntcccgg 362
||||||||||||||||||||||||||||| ||||||
Sbjct: 106798533 ctagcgcttctgctgctgctcgcccttcaggcggccgcggcggcgcccgcggggtcccgg 106798474
Query: 363 acacccgaggactccgagtggcgccaggacgcggagctcccgcagggacttctgtcccag 422
|||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 106798473 acacccgaggactccgagtggcgccaggacgcggagctcccgcaaggacttctgtcccag 106798414
Query: 423 gcggcgcgcgcagctctgcacttcttcaacttccgagcgggttcgcccagcgcccttcga 482
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106798413 gcggcgcgcgcagctctgcacttcttcaacttccgagcgggttcgcccagcgcccttcga 106798354
Query: 483 gtgctggctgaggtgcaggagggcagtgcctgg 515
|||||||||||||||||||||||||||||||||
Sbjct: 106798353 gtgctggctgaggtgcaggagggcagtgcctgg 106798321
Score = 803 bits (405), Expect = 0.0
Identities = 421/429 (98%)
Strand = Plus / Minus
Query: 960 caggaaatcattccctgtcgtattcacttggtctggtaccctggcaaacctctcaaagtg 1019
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106755615 caggaaatcattccctgtcgtattcacttggtctggtaccctggcaaacctctcaaagtg 106755556
Query: 1020 aagtaccactgtcaagagctacagacaccagaagcctctggaactgaagagggatcagct 1079
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106755555 aagtaccactgtcaagagctacagacaccagaagcctctggaactgaagagggatcagct 106755496
Query: 1080 gtggcaccgatagagctcagcaatttctgnnnnnnnngatttgcctataccaaattctga 1139
||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 106755495 gtggcaccgatagagctcagcaatttctgaaaaaaaagatttgcctataccaaattctga 106755436
Query: 1140 acaaatgactgtactaaatagcctgaatcattattctagtaaaattgccaaggtaaaagg 1199
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106755435 acaaatgactgtactaaatagcctgaatcattattctagtaaaattgccaaggtaaaagg 106755376
Query: 1200 cattctaataatttgggaaaacctgtgattatagaaaaatactcaaaaattttcaattag 1259
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106755375 cattctaataatttgggaaaacctgtgattatagaaaaatactcaaaaattttcaattag 106755316
Query: 1260 tttggtttaaatttttaactctgctcagtgctaaatagtcacactgcagatttctcagtg 1319
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106755315 tttggtttaaatttttaactctgctcagtgctaaatagtcacactgcagatttctcagtg 106755256
Query: 1320 tttcagccctaaaatgtaaaacctaatcaattagtatgtgctgcagctggaccactaagt 1379
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106755255 tttcagccctaaaatgtaaaacctaatcaattagtatgtgctgcagctggaccactaagt 106755196
Query: 1380 atttaaaaa 1388
|||||||||
Sbjct: 106755195 atttaaaaa 106755187
Score = 369 bits (186), Expect = 3e-99
Identities = 186/186 (100%)
Strand = Plus / Minus
Query: 577 aggaaggtaaggcacgtctggggaaatgttctgctcaagtatttttcaggaatgagaaac 636
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106767622 aggaaggtaaggcacgtctggggaaatgttctgctcaagtatttttcaggaatgagaaac 106767563
Query: 637 ccagaccggctgttaatgtaacttgtactcagctccttgagaggaagaaaagacaagaag 696
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106767562 ccagaccggctgttaatgtaacttgtactcagctccttgagaggaagaaaagacaagaag 106767503
Query: 697 aggattatcagctctacaggcacatgaagcaacttaacacccccttggatgtagtcagca 756
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106767502 aggattatcagctctacaggcacatgaagcaacttaacacccccttggatgtagtcagca 106767443
Query: 757 tacctg 762
||||||
Sbjct: 106767442 tacctg 106767437
Score = 274 bits (138), Expect = 1e-70
Identities = 138/138 (100%)
Strand = Plus / Minus
Query: 762 gacagtcatggacacattgatccctctctgagacccatctgggatttagcttttctgggc 821
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106764072 gacagtcatggacacattgatccctctctgagacccatctgggatttagcttttctgggc 106764013
Query: 822 agctcttacgtgatgtgggaaaagacaacacagtttttacactactacgtgtcacagctc 881
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106764012 agctcttacgtgatgtgggaaaagacaacacagtttttacactactacgtgtcacagctc 106763953
Query: 882 agcagtgtgaaacagtgg 899
||||||||||||||||||
Sbjct: 106763952 agcagtgtgaaacagtgg 106763935
Score = 129 bits (65), Expect = 5e-27
Identities = 65/65 (100%)
Strand = Plus / Minus
Query: 899 gaaaacaaatgacgatgcaattgattttgattatactgtactactccatgaattctcaac 958
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106755754 gaaaacaaatgacgatgcaattgattttgattatactgtactactccatgaattctcaac 106755695
Query: 959 acagg 963
|||||
Sbjct: 106755694 acagg 106755690
Score = 129 bits (65), Expect = 5e-27
Identities = 65/65 (100%)
Strand = Plus / Minus
Query: 515 gattaatcaaaggaaggaacgtaaagttgacttggtgtttacagcagagctctacaacac 574
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106770246 gattaatcaaaggaaggaacgtaaagttgacttggtgtttacagcagagctctacaacac 106770187
Query: 575 agagg 579
|||||
Sbjct: 106770186 agagg 106770182
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: 42,332,872
Number of extensions: 294
Number of successful extensions: 294
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 294
Number of HSP's successfully gapped: 8
Length of query: 1679
Length of database: 2,808,509,378
Length adjustment: 22
Effective length of query: 1657
Effective length of database: 2,808,408,574
Effective search space: 4653533007118
Effective search space used: 4653533007118
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)