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-003219
(1054 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_001069336.1| nuclear receptor coactivator 4 [Bos taurus]. 436 e-122
>ref|NP_001069336.1| nuclear receptor coactivator 4 [Bos taurus].
Length = 626
Score = 436 bits (1122), Expect = e-122
Identities = 230/318 (72%), Positives = 240/318 (75%), Gaps = 5/318 (1%)
Frame = +2
Query: 116 MSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 295
MSTSQDQ+GCS+++EPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL
Sbjct: 1 MSTSQDQSGCSTSREPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 60
Query: 296 ECLRSREVWLYEQVDLIYXXXXXXXXXXXXXXXXXXXXFNCLIHQLECTQNKDLANQVSV 475
ECLRSREVWLYEQVDLIY FNCLIHQLECTQNKDLANQVS
Sbjct: 61 ECLRSREVWLYEQVDLIYQLKEETLQQQVQQLYWLLGQFNCLIHQLECTQNKDLANQVSA 120
Query: 476 CLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLE 655
CLERLG LTLKPEDST LLFE D TALRQAITTFGSLKTIQIPEHLMAHASSSNIG FLE
Sbjct: 121 CLERLGSLTLKPEDSTALLFEADITALRQAITTFGSLKTIQIPEHLMAHASSSNIGSFLE 180
Query: 656 KRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTS 835
KRGYIP PEQK ASST PLSEWLLGSKPA G QAPY+PSTNLQDWL KQTLENSQTS
Sbjct: 181 KRGYIPLPEQKSASSTTAAPLSEWLLGSKPAVGHQAPYLPSTNLQDWLNHKQTLENSQTS 240
Query: 836 ARACNFFNNVWGNLKGL-----KTGSTRVSXXXXXXXXXXXVQQLSYYQFLLH*N*KSWR 1000
ARAC+F N VWGNLKGL K+ VS SY + K
Sbjct: 241 ARACSFLNKVWGNLKGLENWLHKSQQQEVSEKPSFQKSNSYSTTSSYSMEIE----KVGD 296
Query: 1001 SRAS*QKEMELSDWLMTP 1054
Q EM+LSDWL+TP
Sbjct: 297 LEPLDQDEMDLSDWLVTP 314
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: 39,787,613
Number of extensions: 1049362
Number of successful extensions: 3173
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3168
Number of HSP's successfully gapped: 3
Length of query: 351
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 248
Effective length of database: 14,273,310
Effective search space: 3539780880
Effective search space used: 3539780880
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqCP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-003219
(1054 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_534947.2| PREDICTED: similar to nuclear receptor coactiva... 468 e-132
>ref|XP_534947.2| PREDICTED: similar to nuclear receptor coactivator 4 [Canis
familiaris].
Length = 766
Score = 468 bits (1204), Expect = e-132
Identities = 254/359 (70%), Positives = 271/359 (75%), Gaps = 9/359 (2%)
Frame = +2
Query: 5 LARTLPFRPWLVLGRVSVRQGLLGSPGAALRGGTVNRMSTSQDQNGCSSNKEPLLRCCDA 184
LARTLPF P L +S R+ L SPGAAL GTV+RMSTSQDQ+G SSN+EPLLRCCDA
Sbjct: 104 LARTLPFGPLLDPAGLSPRKLPLASPGAALGAGTVSRMSTSQDQSGRSSNREPLLRCCDA 163
Query: 185 RRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHLECLRSREVWLYEQVDLIYXXXXX 364
RRDLELAIGGVLRAEQQIKDNL+EVKAQIHSCISRHLECLRSREVWLYEQVDLIY
Sbjct: 164 RRDLELAIGGVLRAEQQIKDNLQEVKAQIHSCISRHLECLRSREVWLYEQVDLIYQLKEE 223
Query: 365 XXXXXXXXXXXXXXXFNCLIHQLECTQNKDLANQVSVCLERLGGLTLKPEDSTVLLFETD 544
FNCLIHQLECTQNKDLANQVSVCLERLG LTLKPEDST+LLFE D
Sbjct: 224 TLQQQAQQLYWLLGQFNCLIHQLECTQNKDLANQVSVCLERLGNLTLKPEDSTILLFEAD 283
Query: 545 TTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLEKRGYIPFPE-QKLASSTAVVPLS 721
TTALRQAITTFGSLKTIQIPEHL+AHA+SSNIG FLEKRGYIP PE QK ASST V LS
Sbjct: 284 TTALRQAITTFGSLKTIQIPEHLIAHANSSNIGSFLEKRGYIPLPEQQKSASSTTAVSLS 343
Query: 722 EWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTSARACNFFNNVWGNLKGLKTGST 901
EWLLGSKPAS RQAPYIPSTNLQDWLTQKQTLENSQTSARACNFF VWGNLKGL+
Sbjct: 344 EWLLGSKPASVRQAPYIPSTNLQDWLTQKQTLENSQTSARACNFFGKVWGNLKGLEN--- 400
Query: 902 RVSXXXXXXXXXXXVQQLSYYQFLLH*N*KSWRSRAS--------*QKEMELSDWLMTP 1054
++ +Y + H S+ Q EM+LSDWL+TP
Sbjct: 401 ----WLHQSQQQEVPEKPTYQKCNSHSTTSSYSVEIEKIGDLDLLEQDEMDLSDWLVTP 455
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: 41,545,641
Number of extensions: 1084086
Number of successful extensions: 3182
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3173
Number of HSP's successfully gapped: 4
Length of query: 351
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 247
Effective length of database: 15,407,560
Effective search space: 3805667320
Effective search space used: 3805667320
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqHP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-003219
(1054 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_001138733.1| nuclear receptor coactivator 4 isoform 2 [Ho... 425 e-119
Alignment gi|NP_001138732.1| nuclear receptor coactivator 4 isoform 1 [Ho... 425 e-119
Alignment gi|NP_005428.1| nuclear receptor coactivator 4 isoform 3 [Homo ... 419 e-117
Alignment gi|NP_001138735.1| nuclear receptor coactivator 4 isoform 3 [Ho... 419 e-117
Alignment gi|NP_001138734.1| nuclear receptor coactivator 4 isoform 3 [Ho... 419 e-117
>ref|NP_001138733.1| nuclear receptor coactivator 4 isoform 2 [Homo sapiens].
Length = 630
Score = 425 bits (1092), Expect = e-119
Identities = 227/326 (69%), Positives = 241/326 (73%), Gaps = 8/326 (2%)
Frame = +2
Query: 101 GTVNRMSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSC 280
G V RM+T QDQ+G SSN+EPLLRC DARRDLELAIGGVLRAEQQIKDNLREVKAQIHSC
Sbjct: 12 GAVRRMNTFQDQSGSSSNREPLLRCSDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSC 71
Query: 281 ISRHLECLRSREVWLYEQVDLIYXXXXXXXXXXXXXXXXXXXXFNCLIHQLECTQNKDLA 460
ISRHLECLRSREVWLYEQVDLIY FNCL HQLECTQNKDLA
Sbjct: 72 ISRHLECLRSREVWLYEQVDLIYQLKEETLQQQAQQLYSLLGQFNCLTHQLECTQNKDLA 131
Query: 461 NQVSVCLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNI 640
NQVSVCLERLG LTLKPEDSTVLLFE DT LRQ ITTFGSLKTIQIPEHLMAHASS+NI
Sbjct: 132 NQVSVCLERLGSLTLKPEDSTVLLFEADTITLRQTITTFGSLKTIQIPEHLMAHASSANI 191
Query: 641 GPFLEKRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLE 820
GPFLEKRG I PEQK AS VP SEWLLGSKPASG QAPYIPST+ QDWLTQKQTLE
Sbjct: 192 GPFLEKRGCISMPEQKSASGIVAVPFSEWLLGSKPASGYQAPYIPSTDPQDWLTQKQTLE 251
Query: 821 NSQTSARACNFFNNVWGNLKGLKTGSTRVSXXXXXXXXXXXVQQLSYYQFLLH*N*KSWR 1000
NSQTS+RACNFFNNV GNLKGL+ + ++ SY + H S+
Sbjct: 252 NSQTSSRACNFFNNVGGNLKGLENWLLK-------------SEKSSYQKCNSHSTTSSFS 298
Query: 1001 --------SRAS*QKEMELSDWLMTP 1054
Q EM+LSDWL+TP
Sbjct: 299 IEMEKVGDQELPDQDEMDLSDWLVTP 324
>ref|NP_001138732.1| nuclear receptor coactivator 4 isoform 1 [Homo sapiens].
Length = 650
Score = 425 bits (1092), Expect = e-119
Identities = 227/326 (69%), Positives = 241/326 (73%), Gaps = 8/326 (2%)
Frame = +2
Query: 101 GTVNRMSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSC 280
G V RM+T QDQ+G SSN+EPLLRC DARRDLELAIGGVLRAEQQIKDNLREVKAQIHSC
Sbjct: 12 GAVRRMNTFQDQSGSSSNREPLLRCSDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSC 71
Query: 281 ISRHLECLRSREVWLYEQVDLIYXXXXXXXXXXXXXXXXXXXXFNCLIHQLECTQNKDLA 460
ISRHLECLRSREVWLYEQVDLIY FNCL HQLECTQNKDLA
Sbjct: 72 ISRHLECLRSREVWLYEQVDLIYQLKEETLQQQAQQLYSLLGQFNCLTHQLECTQNKDLA 131
Query: 461 NQVSVCLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNI 640
NQVSVCLERLG LTLKPEDSTVLLFE DT LRQ ITTFGSLKTIQIPEHLMAHASS+NI
Sbjct: 132 NQVSVCLERLGSLTLKPEDSTVLLFEADTITLRQTITTFGSLKTIQIPEHLMAHASSANI 191
Query: 641 GPFLEKRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLE 820
GPFLEKRG I PEQK AS VP SEWLLGSKPASG QAPYIPST+ QDWLTQKQTLE
Sbjct: 192 GPFLEKRGCISMPEQKSASGIVAVPFSEWLLGSKPASGYQAPYIPSTDPQDWLTQKQTLE 251
Query: 821 NSQTSARACNFFNNVWGNLKGLKTGSTRVSXXXXXXXXXXXVQQLSYYQFLLH*N*KSWR 1000
NSQTS+RACNFFNNV GNLKGL+ + ++ SY + H S+
Sbjct: 252 NSQTSSRACNFFNNVGGNLKGLENWLLK-------------SEKSSYQKCNSHSTTSSFS 298
Query: 1001 --------SRAS*QKEMELSDWLMTP 1054
Q EM+LSDWL+TP
Sbjct: 299 IEMEKVGDQELPDQDEMDLSDWLVTP 324
>ref|NP_005428.1| nuclear receptor coactivator 4 isoform 3 [Homo sapiens].
Length = 614
Score = 419 bits (1077), Expect = e-117
Identities = 224/321 (69%), Positives = 238/321 (74%), Gaps = 8/321 (2%)
Frame = +2
Query: 116 MSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 295
M+T QDQ+G SSN+EPLLRC DARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL
Sbjct: 1 MNTFQDQSGSSSNREPLLRCSDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 60
Query: 296 ECLRSREVWLYEQVDLIYXXXXXXXXXXXXXXXXXXXXFNCLIHQLECTQNKDLANQVSV 475
ECLRSREVWLYEQVDLIY FNCL HQLECTQNKDLANQVSV
Sbjct: 61 ECLRSREVWLYEQVDLIYQLKEETLQQQAQQLYSLLGQFNCLTHQLECTQNKDLANQVSV 120
Query: 476 CLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLE 655
CLERLG LTLKPEDSTVLLFE DT LRQ ITTFGSLKTIQIPEHLMAHASS+NIGPFLE
Sbjct: 121 CLERLGSLTLKPEDSTVLLFEADTITLRQTITTFGSLKTIQIPEHLMAHASSANIGPFLE 180
Query: 656 KRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTS 835
KRG I PEQK AS VP SEWLLGSKPASG QAPYIPST+ QDWLTQKQTLENSQTS
Sbjct: 181 KRGCISMPEQKSASGIVAVPFSEWLLGSKPASGYQAPYIPSTDPQDWLTQKQTLENSQTS 240
Query: 836 ARACNFFNNVWGNLKGLKTGSTRVSXXXXXXXXXXXVQQLSYYQFLLH*N*KSWR----- 1000
+RACNFFNNV GNLKGL+ + ++ SY + H S+
Sbjct: 241 SRACNFFNNVGGNLKGLENWLLK-------------SEKSSYQKCNSHSTTSSFSIEMEK 287
Query: 1001 ---SRAS*QKEMELSDWLMTP 1054
Q EM+LSDWL+TP
Sbjct: 288 VGDQELPDQDEMDLSDWLVTP 308
>ref|NP_001138735.1| nuclear receptor coactivator 4 isoform 3 [Homo sapiens].
Length = 614
Score = 419 bits (1077), Expect = e-117
Identities = 224/321 (69%), Positives = 238/321 (74%), Gaps = 8/321 (2%)
Frame = +2
Query: 116 MSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 295
M+T QDQ+G SSN+EPLLRC DARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL
Sbjct: 1 MNTFQDQSGSSSNREPLLRCSDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 60
Query: 296 ECLRSREVWLYEQVDLIYXXXXXXXXXXXXXXXXXXXXFNCLIHQLECTQNKDLANQVSV 475
ECLRSREVWLYEQVDLIY FNCL HQLECTQNKDLANQVSV
Sbjct: 61 ECLRSREVWLYEQVDLIYQLKEETLQQQAQQLYSLLGQFNCLTHQLECTQNKDLANQVSV 120
Query: 476 CLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLE 655
CLERLG LTLKPEDSTVLLFE DT LRQ ITTFGSLKTIQIPEHLMAHASS+NIGPFLE
Sbjct: 121 CLERLGSLTLKPEDSTVLLFEADTITLRQTITTFGSLKTIQIPEHLMAHASSANIGPFLE 180
Query: 656 KRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTS 835
KRG I PEQK AS VP SEWLLGSKPASG QAPYIPST+ QDWLTQKQTLENSQTS
Sbjct: 181 KRGCISMPEQKSASGIVAVPFSEWLLGSKPASGYQAPYIPSTDPQDWLTQKQTLENSQTS 240
Query: 836 ARACNFFNNVWGNLKGLKTGSTRVSXXXXXXXXXXXVQQLSYYQFLLH*N*KSWR----- 1000
+RACNFFNNV GNLKGL+ + ++ SY + H S+
Sbjct: 241 SRACNFFNNVGGNLKGLENWLLK-------------SEKSSYQKCNSHSTTSSFSIEMEK 287
Query: 1001 ---SRAS*QKEMELSDWLMTP 1054
Q EM+LSDWL+TP
Sbjct: 288 VGDQELPDQDEMDLSDWLVTP 308
>ref|NP_001138734.1| nuclear receptor coactivator 4 isoform 3 [Homo sapiens].
Length = 614
Score = 419 bits (1077), Expect = e-117
Identities = 224/321 (69%), Positives = 238/321 (74%), Gaps = 8/321 (2%)
Frame = +2
Query: 116 MSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 295
M+T QDQ+G SSN+EPLLRC DARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL
Sbjct: 1 MNTFQDQSGSSSNREPLLRCSDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 60
Query: 296 ECLRSREVWLYEQVDLIYXXXXXXXXXXXXXXXXXXXXFNCLIHQLECTQNKDLANQVSV 475
ECLRSREVWLYEQVDLIY FNCL HQLECTQNKDLANQVSV
Sbjct: 61 ECLRSREVWLYEQVDLIYQLKEETLQQQAQQLYSLLGQFNCLTHQLECTQNKDLANQVSV 120
Query: 476 CLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLE 655
CLERLG LTLKPEDSTVLLFE DT LRQ ITTFGSLKTIQIPEHLMAHASS+NIGPFLE
Sbjct: 121 CLERLGSLTLKPEDSTVLLFEADTITLRQTITTFGSLKTIQIPEHLMAHASSANIGPFLE 180
Query: 656 KRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTS 835
KRG I PEQK AS VP SEWLLGSKPASG QAPYIPST+ QDWLTQKQTLENSQTS
Sbjct: 181 KRGCISMPEQKSASGIVAVPFSEWLLGSKPASGYQAPYIPSTDPQDWLTQKQTLENSQTS 240
Query: 836 ARACNFFNNVWGNLKGLKTGSTRVSXXXXXXXXXXXVQQLSYYQFLLH*N*KSWR----- 1000
+RACNFFNNV GNLKGL+ + ++ SY + H S+
Sbjct: 241 SRACNFFNNVGGNLKGLENWLLK-------------SEKSSYQKCNSHSTTSSFSIEMEK 287
Query: 1001 ---SRAS*QKEMELSDWLMTP 1054
Q EM+LSDWL+TP
Sbjct: 288 VGDQELPDQDEMDLSDWLVTP 308
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: 40,784,803
Number of extensions: 1067794
Number of successful extensions: 3110
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 3104
Number of HSP's successfully gapped: 15
Length of query: 351
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 248
Effective length of database: 14,901,872
Effective search space: 3695664256
Effective search space used: 3695664256
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqMP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-003219
(1054 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|XP_930848.3| PREDICTED: nuclear receptor coactivator 4-like ... 395 e-110
Alignment gi|NP_062718.2| nuclear receptor coactivator 4 [Mus musculus]. 395 e-110
Alignment gi|NP_001029160.1| nuclear receptor coactivator 4 [Mus musculus]. 395 e-110
>ref|XP_930848.3| PREDICTED: nuclear receptor coactivator 4-like isoform 2 [Mus
musculus].
Length = 625
Score = 395 bits (1015), Expect = e-110
Identities = 213/327 (65%), Positives = 233/327 (71%), Gaps = 14/327 (4%)
Frame = +2
Query: 116 MSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 295
M+TS +Q+GC SN+E LLRC DARR+LELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL
Sbjct: 1 MNTSLEQSGCYSNRETLLRCSDARRELELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 60
Query: 296 ECLRSREVWLYEQVDLIYXXXXXXXXXXXXXXXXXXXXFNCLIHQLECTQNKDLANQVSV 475
ECLRSREVWL EQVDLIY FNCLIHQLE TQNKDLANQVSV
Sbjct: 61 ECLRSREVWLNEQVDLIYQLKEETLQQQAQQLYWLMGQFNCLIHQLEYTQNKDLANQVSV 120
Query: 476 CLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLE 655
CLERLG L LKPEDSTVLLFE DT+ALRQ ITTFGSLKTIQIPEHLMAHASSS+IGPFLE
Sbjct: 121 CLERLGSLALKPEDSTVLLFEADTSALRQTITTFGSLKTIQIPEHLMAHASSSSIGPFLE 180
Query: 656 KRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTS 835
KRGYI PEQK ASS V LSEWLL SKPA G QAPY+PSTN QDWL KQT ENSQTS
Sbjct: 181 KRGYIQVPEQKSASSGTAVSLSEWLLVSKPAIGLQAPYVPSTNPQDWLIPKQTSENSQTS 240
Query: 836 ARACNFFNNVWGNLKGL--------------KTGSTRVSXXXXXXXXXXXVQQLSYYQFL 973
ARAC+FF++ WGNLKGL K S++ + ++ + L
Sbjct: 241 ARACSFFSDAWGNLKGLENWLLNSHQQEIAGKPSSSKCNSHCSTSSFSPEAEKAEDVELL 300
Query: 974 LH*N*KSWRSRAS*QKEMELSDWLMTP 1054
Q E++LSDWL+TP
Sbjct: 301 -------------DQDELDLSDWLVTP 314
>ref|NP_062718.2| nuclear receptor coactivator 4 [Mus musculus].
Length = 625
Score = 395 bits (1015), Expect = e-110
Identities = 213/327 (65%), Positives = 233/327 (71%), Gaps = 14/327 (4%)
Frame = +2
Query: 116 MSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 295
M+TS +Q+GC SN+E LLRC DARR+LELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL
Sbjct: 1 MNTSLEQSGCYSNRETLLRCSDARRELELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 60
Query: 296 ECLRSREVWLYEQVDLIYXXXXXXXXXXXXXXXXXXXXFNCLIHQLECTQNKDLANQVSV 475
ECLRSREVWL EQVDLIY FNCLIHQLE TQNKDLANQVSV
Sbjct: 61 ECLRSREVWLNEQVDLIYQLKEETLQQQAQQLYWLMGQFNCLIHQLEYTQNKDLANQVSV 120
Query: 476 CLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLE 655
CLERLG L LKPEDSTVLLFE DT+ALRQ ITTFGSLKTIQIPEHLMAHASSS+IGPFLE
Sbjct: 121 CLERLGSLALKPEDSTVLLFEADTSALRQTITTFGSLKTIQIPEHLMAHASSSSIGPFLE 180
Query: 656 KRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTS 835
KRGYI PEQK ASS V LSEWLL SKPA G QAPY+PSTN QDWL KQT ENSQTS
Sbjct: 181 KRGYIQVPEQKSASSGTAVSLSEWLLVSKPAIGLQAPYVPSTNPQDWLIPKQTSENSQTS 240
Query: 836 ARACNFFNNVWGNLKGL--------------KTGSTRVSXXXXXXXXXXXVQQLSYYQFL 973
ARAC+FF++ WGNLKGL K S++ + ++ + L
Sbjct: 241 ARACSFFSDAWGNLKGLENWLLNSHQQEIAGKPSSSKCNSHCSTSSFSPEAEKAEDVELL 300
Query: 974 LH*N*KSWRSRAS*QKEMELSDWLMTP 1054
Q E++LSDWL+TP
Sbjct: 301 -------------DQDELDLSDWLVTP 314
>ref|NP_001029160.1| nuclear receptor coactivator 4 [Mus musculus].
Length = 625
Score = 395 bits (1015), Expect = e-110
Identities = 213/327 (65%), Positives = 233/327 (71%), Gaps = 14/327 (4%)
Frame = +2
Query: 116 MSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 295
M+TS +Q+GC SN+E LLRC DARR+LELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL
Sbjct: 1 MNTSLEQSGCYSNRETLLRCSDARRELELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 60
Query: 296 ECLRSREVWLYEQVDLIYXXXXXXXXXXXXXXXXXXXXFNCLIHQLECTQNKDLANQVSV 475
ECLRSREVWL EQVDLIY FNCLIHQLE TQNKDLANQVSV
Sbjct: 61 ECLRSREVWLNEQVDLIYQLKEETLQQQAQQLYWLMGQFNCLIHQLEYTQNKDLANQVSV 120
Query: 476 CLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLE 655
CLERLG L LKPEDSTVLLFE DT+ALRQ ITTFGSLKTIQIPEHLMAHASSS+IGPFLE
Sbjct: 121 CLERLGSLALKPEDSTVLLFEADTSALRQTITTFGSLKTIQIPEHLMAHASSSSIGPFLE 180
Query: 656 KRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTS 835
KRGYI PEQK ASS V LSEWLL SKPA G QAPY+PSTN QDWL KQT ENSQTS
Sbjct: 181 KRGYIQVPEQKSASSGTAVSLSEWLLVSKPAIGLQAPYVPSTNPQDWLIPKQTSENSQTS 240
Query: 836 ARACNFFNNVWGNLKGL--------------KTGSTRVSXXXXXXXXXXXVQQLSYYQFL 973
ARAC+FF++ WGNLKGL K S++ + ++ + L
Sbjct: 241 ARACSFFSDAWGNLKGLENWLLNSHQQEIAGKPSSSKCNSHCSTSSFSPEAEKAEDVELL 300
Query: 974 LH*N*KSWRSRAS*QKEMELSDWLMTP 1054
Q E++LSDWL+TP
Sbjct: 301 -------------DQDELDLSDWLVTP 314
Database: RefSeq49_MP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 15,617,559
Number of sequences in database: 30,036
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 30036
Number of Hits to DB: 34,566,329
Number of extensions: 890256
Number of successful extensions: 2633
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 2629
Number of HSP's successfully gapped: 12
Length of query: 351
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 249
Effective length of database: 12,553,887
Effective search space: 3125917863
Effective search space used: 3125917863
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-003219
(1054 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_001230051.1| nuclear receptor coactivator 4 [Sus scrofa]. 479 e-136
>ref|NP_001230051.1| nuclear receptor coactivator 4 [Sus scrofa].
Length = 620
Score = 479 bits (1234), Expect = e-136
Identities = 252/317 (79%), Positives = 255/317 (80%), Gaps = 4/317 (1%)
Frame = +2
Query: 116 MSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 295
MSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL
Sbjct: 1 MSTSQDQNGCSSNKEPLLRCCDARRDLELAIGGVLRAEQQIKDNLREVKAQIHSCISRHL 60
Query: 296 ECLRSREVWLYEQVDLIYXXXXXXXXXXXXXXXXXXXXFNCLIHQLECTQNKDLANQVSV 475
ECLRSREVWLYEQVDLIY FNCLIHQLECTQNKDLANQVSV
Sbjct: 61 ECLRSREVWLYEQVDLIYQLKEETLQQQAQQLYWLLGQFNCLIHQLECTQNKDLANQVSV 120
Query: 476 CLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLE 655
CLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLE
Sbjct: 121 CLERLGGLTLKPEDSTVLLFETDTTALRQAITTFGSLKTIQIPEHLMAHASSSNIGPFLE 180
Query: 656 KRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTS 835
KRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTS
Sbjct: 181 KRGYIPFPEQKLASSTAVVPLSEWLLGSKPASGRQAPYIPSTNLQDWLTQKQTLENSQTS 240
Query: 836 ARACNFFNNVWGNLKGLKT----GSTRVSXXXXXXXXXXXVQQLSYYQFLLH*N*KSWRS 1003
ARACNFFNNVWGNLKGL+ G + S Y K
Sbjct: 241 ARACNFFNNVWGNLKGLENWLHKGQQQEVSEKPSYEKCNSSPTTSSYSIETE---KVGDL 297
Query: 1004 RAS*QKEMELSDWLMTP 1054
Q EM+LSDWLMTP
Sbjct: 298 ELLDQDEMDLSDWLMTP 314
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: 25,616,724
Number of extensions: 676019
Number of successful extensions: 2013
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2011
Number of HSP's successfully gapped: 4
Length of query: 351
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 251
Effective length of database: 8,854,232
Effective search space: 2222412232
Effective search space used: 2222412232
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-003219
(1054 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_Chr14 361 5e-97
>Sscrofa_Chr14
|| Length = 153851969
Score = 361 bits (182), Expect = 5e-97
Identities = 221/230 (96%), Gaps = 3/230 (1%)
Strand = Plus / Minus
Query: 828 agacttctgccagagcctgcaatttcttcaataatgtctggggtaacctaaagggctta- 886
||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 98551664 agacttctgccagagcctgcagtttcttcaataatgtctggggtaacctaaagggcttag 98551605
Query: 887 aaaactggctccacaagggtcagcaacaagaagtttctgaaaaac-aagttatgaaaagt 945
||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 98551604 aaaactggctccacaagggtcagcaacaagaagtttctgaaaaaccaagttatgaaaagt 98551545
Query: 946 gcaacagctctcctactaccagttcctactccattgaaactgaaaaagttggagatctag 1005
||||||||||||||||||||||||| |||||||||||||||||||| |||||||||||||
Sbjct: 98551544 gcaacagctctcctactaccagttcttactccattgaaactgaaaaggttggagatctag 98551485
Query: 1006 agcttcttga-caaaaagagatggaactctctgattggctgatgactccc 1054
|||||||||| ||| | |||||||| ||||||||||||||||||||||||
Sbjct: 98551484 agcttcttgaccaagatgagatggacctctctgattggctgatgactccc 98551435
Score = 313 bits (158), Expect = 1e-82
Identities = 158/158 (100%)
Strand = Plus / Minus
Query: 101 ggaacagtgaacagaatgagtacctcacaggaccagaatggctgctccagtaataaagaa 160
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98558038 ggaacagtgaacagaatgagtacctcacaggaccagaatggctgctccagtaataaagaa 98557979
Query: 161 cctcttttgaggtgttgtgatgcacggagggacttggagcttgctattggtggagttctt 220
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98557978 cctcttttgaggtgttgtgatgcacggagggacttggagcttgctattggtggagttctt 98557919
Query: 221 cgggctgaacagcaaattaaagataacttgcgagaggt 258
||||||||||||||||||||||||||||||||||||||
Sbjct: 98557918 cgggctgaacagcaaattaaagataacttgcgagaggt 98557881
Score = 295 bits (149), Expect = 3e-77
Identities = 149/149 (100%)
Strand = Plus / Minus
Query: 681 agcagaagttagcatccagcactgcagttgtccctctcagcgaatggctccttggaagca 740
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98553471 agcagaagttagcatccagcactgcagttgtccctctcagcgaatggctccttggaagca 98553412
Query: 741 aacctgccagtggtcgccaggctccttacatacccagcaccaacctccaggactggctta 800
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98553411 aacctgccagtggtcgccaggctccttacatacccagcaccaacctccaggactggctta 98553352
Query: 801 cccaaaaacagaccttggaaaatagtcag 829
|||||||||||||||||||||||||||||
Sbjct: 98553351 cccaaaaacagaccttggaaaatagtcag 98553323
Score = 283 bits (143), Expect = 1e-73
Identities = 143/143 (100%)
Strand = Plus / Minus
Query: 255 aggtcaaagcccagattcacagctgcataagtcgtcacctggaatgccttcgaagccgtg 314
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98556393 aggtcaaagcccagattcacagctgcataagtcgtcacctggaatgccttcgaagccgtg 98556334
Query: 315 aagtgtggctgtatgagcaggtggatctcatctatcagcttaaagaggaaacgcttcagc 374
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98556333 aagtgtggctgtatgagcaggtggatctcatctatcagcttaaagaggaaacgcttcagc 98556274
Query: 375 agcaggcccaacagctctactgg 397
|||||||||||||||||||||||
Sbjct: 98556273 agcaggcccaacagctctactgg 98556251
Score = 220 bits (111), Expect = 1e-54
Identities = 111/111 (100%)
Strand = Plus / Minus
Query: 485 agactgggcggtttgaccctcaaacctgaagattcgactgtcctgctttttgaaactgac 544
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98555236 agactgggcggtttgaccctcaaacctgaagattcgactgtcctgctttttgaaactgac 98555177
Query: 545 acaactgctctacgccaggccatcaccacatttgggtccctcaagaccatc 595
|||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98555176 acaactgctctacgccaggccatcaccacatttgggtccctcaagaccatc 98555126
Score = 200 bits (101), Expect = 1e-48
Identities = 101/101 (100%)
Strand = Plus / Minus
Query: 2 gttctcgcgagaactctgcctttcagaccttggctcgtgttgggccgcgtctcagtccgc 61
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98573715 gttctcgcgagaactctgcctttcagaccttggctcgtgttgggccgcgtctcagtccgc 98573656
Query: 62 caaggtctcctcggatcgccgggagccgcgctcagaggtgg 102
|||||||||||||||||||||||||||||||||||||||||
Sbjct: 98573655 caaggtctcctcggatcgccgggagccgcgctcagaggtgg 98573615
Score = 178 bits (90), Expect = 4e-42
Identities = 90/90 (100%)
Strand = Plus / Minus
Query: 596 caaattcctgagcacctgatggctcatgctagttcatcaaatatcgggcccttcctggag 655
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98554363 caaattcctgagcacctgatggctcatgctagttcatcaaatatcgggcccttcctggag 98554304
Query: 656 aaaagaggctatatcccatttccagagcag 685
||||||||||||||||||||||||||||||
Sbjct: 98554303 aaaagaggctatatcccatttccagagcag 98554274
Score = 178 bits (90), Expect = 4e-42
Identities = 90/90 (100%)
Strand = Plus / Minus
Query: 397 gttactgggccagttcaattgtcttattcatcagctggagtgtacccaaaacaaagatct 456
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98556040 gttactgggccagttcaattgtcttattcatcagctggagtgtacccaaaacaaagatct 98555981
Query: 457 agccaatcaagtctccgtgtgcctggagag 486
||||||||||||||||||||||||||||||
Sbjct: 98555980 agccaatcaagtctccgtgtgcctggagag 98555951
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: 31,398,565
Number of extensions: 193
Number of successful extensions: 193
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 190
Number of HSP's successfully gapped: 8
Length of query: 1054
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1033
Effective length of database: 2,808,413,156
Effective search space: 2901090790148
Effective search space used: 2901090790148
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)