Animal-Genome cDNA 20110601C-001775


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-001775
         (1027 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_001073109.1| PRKR-interacting protein 1 [Bos taurus].          209   2e-54

>ref|NP_001073109.1| PRKR-interacting protein 1 [Bos taurus].
          Length = 186

 Score =  209 bits (533), Expect = 2e-54
 Identities = 101/104 (97%), Positives = 103/104 (99%)
 Frame = +2

Query: 92  KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA 271
           KKEPQ L+IPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA
Sbjct: 15  KKEPQALIIPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA 74

Query: 272 GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLERNKI 403
           GSGEFHVYRHLRRREYQRQDYMDAMAEKQKL+AEFQKRLERNKI
Sbjct: 75  GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLEAEFQKRLERNKI 118


  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: 35,657,051
Number of extensions: 1002558
Number of successful extensions: 5072
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 5059
Number of HSP's successfully gapped: 1
Length of query: 342
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 239
Effective length of database: 14,273,310
Effective search space: 3411321090
Effective search space used: 3411321090
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-001775
         (1027 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_850116.1| PREDICTED: similar to PRKR interacting protein ...   211   7e-55

>ref|XP_850116.1| PREDICTED: similar to PRKR interacting protein 1 (IL11 inducible)
           [Canis familiaris].
          Length = 235

 Score =  211 bits (538), Expect = 7e-55
 Identities = 103/104 (99%), Positives = 103/104 (99%)
 Frame = +2

Query: 92  KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA 271
           KKEPQ LVIPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA
Sbjct: 64  KKEPQALVIPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA 123

Query: 272 GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLERNKI 403
           GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLERNKI
Sbjct: 124 GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLERNKI 167


  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: 37,220,461
Number of extensions: 1035599
Number of successful extensions: 5111
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 5103
Number of HSP's successfully gapped: 1
Length of query: 342
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 239
Effective length of database: 15,440,896
Effective search space: 3690374144
Effective search space used: 3690374144
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-001775
         (1027 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_078929.1| PRKR-interacting protein 1 [Homo sapiens].           212   4e-55

>ref|NP_078929.1| PRKR-interacting protein 1 [Homo sapiens].
          Length = 184

 Score =  212 bits (540), Expect = 4e-55
 Identities = 103/104 (99%), Positives = 104/104 (100%)
 Frame = +2

Query: 92  KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA 271
           KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA
Sbjct: 15  KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA 74

Query: 272 GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLERNKI 403
           GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLE+NKI
Sbjct: 75  GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLEKNKI 118


  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: 36,363,022
Number of extensions: 1006942
Number of successful extensions: 4704
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4697
Number of HSP's successfully gapped: 1
Length of query: 342
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 239
Effective length of database: 14,901,872
Effective search space: 3561547408
Effective search space used: 3561547408
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-001775
         (1027 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_080050.1| PRKR-interacting protein 1 [Mus musculus].           208   6e-54

>ref|NP_080050.1| PRKR-interacting protein 1 [Mus musculus].
          Length = 186

 Score =  208 bits (529), Expect = 6e-54
 Identities = 101/104 (97%), Positives = 103/104 (99%)
 Frame = +2

Query: 92  KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA 271
           KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEKM+EWAPR PPEFVRDVMGSSAGA
Sbjct: 15  KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEKMNEWAPRAPPEFVRDVMGSSAGA 74

Query: 272 GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLERNKI 403
           GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLE+NKI
Sbjct: 75  GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLEKNKI 118


  Database: RefSeq49_MP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 15,617,559
  Number of sequences in database:  30,036
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 30036
Number of Hits to DB: 30,587,696
Number of extensions: 830619
Number of successful extensions: 4010
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4002
Number of HSP's successfully gapped: 1
Length of query: 342
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 240
Effective length of database: 12,553,887
Effective search space: 3012932880
Effective search space used: 3012932880
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-001775
         (1027 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_003124432.2| PREDICTED: PRKR-interacting protein 1-like [...   212   3e-55

>ref|XP_003124432.2| PREDICTED: PRKR-interacting protein 1-like [Sus scrofa].
          Length = 162

 Score =  212 bits (539), Expect = 3e-55
 Identities = 103/104 (99%), Positives = 104/104 (100%)
 Frame = +2

Query: 92  KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEKMSEWAPRPPPEFVRDVMGSSAGA 271
           KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEK+SEWAPRPPPEFVRDVMGSSAGA
Sbjct: 15  KKEPQTLVIPKNAAEEQKLKLERLMKNPDKAVPIPEKVSEWAPRPPPEFVRDVMGSSAGA 74

Query: 272 GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLERNKI 403
           GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLERNKI
Sbjct: 75  GSGEFHVYRHLRRREYQRQDYMDAMAEKQKLDAEFQKRLERNKI 118


  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: 23,051,656
Number of extensions: 650153
Number of successful extensions: 3161
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3149
Number of HSP's successfully gapped: 1
Length of query: 342
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 242
Effective length of database: 8,854,232
Effective search space: 2142724144
Effective search space used: 2142724144
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-001775
         (1027 letters)

Database: Sscrofa_10.2.fasta 
           4582 sequences; 2,808,509,378 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Sscrofa_Chr03                                                         886   0.0  

>Sscrofa_Chr03 
||          Length = 144787322

 Score =  886 bits (447), Expect = 0.0
 Identities = 496/518 (95%)
 Strand = Plus / Plus

                                                                           
Query: 510     gatccagtcagtcccaggagcagctgtccagtagctcagaggaggcatctggaacnnnnn 569
               |||||||||||||||||||||||||||||||||||||||||||||||||||||||     
Sbjct: 9547563 gatccagtcagtcccaggagcagctgtccagtagctcagaggaggcatctggaacggagg 9547622

                                                                           
Query: 570     nnnnnnnnnnnncggcagcggccgagcccagcttcatcatggggcgatgaggatgttgtc 629
                           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9547623 aggaggaggaggcggcagcggccgagcccagcttcatcatggggcgatgaggatgttgtc 9547682

                                                                           
Query: 630     tgcagcagctgttgaggcctgtgaccaggacctcagaaaatcatcctccacgggccccga 689
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9547683 tgcagcagctgttgaggcctgtgaccaggacctcagaaaatcatcctccacgggccccga 9547742

                                                                           
Query: 690     ggggaagggagcctctgtttgcagctcactttccctcccaaagccgtgcttgcagaagca 749
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9547743 ggggaagggagcctctgtttgcagctcactttccctcccaaagccgtgcttgcagaagca 9547802

                                                                           
Query: 750     agtaggcccccacccccagggctcgtcgtcccctgtccgcaggactcggcaggactcggc 809
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9547803 agtaggcccccacccccagggctcgtcgtcccctgtccgcaggactcggcaggactcggc 9547862

                                                                           
Query: 810     ccggcccgtgggagagaggactgtctcctgacactgccaagggcccggccggggtcacag 869
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9547863 ccggcccgtgggagagaggactgtctcctgacactgccaagggcccggccggggtcacag 9547922

                                                                           
Query: 870     acgtttccgctaaaggggaagctgtcttgcctgttcctccagtgcctgttctcatgtaac 929
               |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 9547923 acgtttccgctaaaggggaagctgtcttgcctgttcttccagtgcctgttctcatgtaac 9547982

                                                                           
Query: 930     tgaacagtgatgagtttggggctggtttctgtgaaaagaatggtttagtaaaaaacagaa 989
               |||||||||||||||||||||||||||||||||||| ||||| |||||||||||||||||
Sbjct: 9547983 tgaacagtgatgagtttggggctggtttctgtgaaaggaatgttttagtaaaaaacagaa 9548042

                                                     
Query: 990     aaacttcaggtttttgtgagacctgtgaaatgctgatg 1027
               ||||||||||||||  ||||||||||||||||||||||
Sbjct: 9548043 aaacttcaggttttgttgagacctgtgaaatgctgatg 9548080



 Score =  349 bits (176), Expect = 2e-93
 Identities = 176/176 (100%)
 Strand = Plus / Plus

                                                                           
Query: 1       tacgcgcgccgccgcttccgcccctccacagggaggctggagagtagtcatggcgagttc 60
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9518708 tacgcgcgccgccgcttccgcccctccacagggaggctggagagtagtcatggcgagttc 9518767

                                                                           
Query: 61      agctgcctcctcggtgcgaccgcccaggcccaagaaagagccgcagacgctcgtcatccc 120
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9518768 agctgcctcctcggtgcgaccgcccaggcccaagaaagagccgcagacgctcgtcatccc 9518827

                                                                       
Query: 121     caagaatgcggcggaggagcagaagctcaagctggaacggctcatgaagaacccgg 176
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9518828 caagaatgcggcggaggagcagaagctcaagctggaacggctcatgaagaacccgg 9518883



 Score =  202 bits (102), Expect = 3e-49
 Identities = 102/102 (100%)
 Strand = Plus / Plus

                                                                           
Query: 254     ggttcaagtgctggggccggcagcggagagttccatgtgtacaggcatctgcgccggaga 313
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9520791 ggttcaagtgctggggccggcagcggagagttccatgtgtacaggcatctgcgccggaga 9520850

                                                         
Query: 314     gagtaccagcggcaggactacatggatgccatggctgagaag 355
               ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9520851 gagtaccagcggcaggactacatggatgccatggctgagaag 9520892



 Score =  174 bits (88), Expect = 6e-41
 Identities = 88/88 (100%)
 Strand = Plus / Plus

                                                                           
Query: 354     agcaaaaactggatgcagagtttcagaaaagactggaaaggaataagattgctgcagagg 413
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9525321 agcaaaaactggatgcagagtttcagaaaagactggaaaggaataagattgctgcagagg 9525380

                                           
Query: 414     agcagactgcaaagcgccggaaaaagcg 441
               ||||||||||||||||||||||||||||
Sbjct: 9525381 agcagactgcaaagcgccggaaaaagcg 9525408



 Score =  155 bits (78), Expect = 6e-35
 Identities = 81/82 (98%)
 Strand = Plus / Plus

                                                                           
Query: 175     ggacaaagcagttccaattccagaaaaaatgagtgaatgggcacctcgacctcccccgga 234
               |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 9519559 ggacaaagcagttccaattccagaaaaagtgagtgaatgggcacctcgacctcccccgga 9519618

                                     
Query: 235     atttgtccgagatgtaatgggt 256
               ||||||||||||||||||||||
Sbjct: 9519619 atttgtccgagatgtaatgggt 9519640


  Database: Sscrofa_10.2.fasta
    Posted date:  Nov 16, 2011 10:34 AM
  Number of letters in database: 2,808,509,378
  Number of sequences in database:  4582
  
Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 4582
Number of Hits to DB: 27,635,365
Number of extensions: 238
Number of successful extensions: 238
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 238
Number of HSP's successfully gapped: 6
Length of query: 1027
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1006
Effective length of database: 2,808,413,156
Effective search space: 2825263634936
Effective search space used: 2825263634936
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 29 (58.0 bits)