Animal-Genome cDNA 20110601C-003219


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)