Animal-Genome cDNA 20110601C-003248


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-003248
         (840 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_851348.1| chromogranin-A [Bos taurus].                         301   5e-82

>ref|NP_851348.1| chromogranin-A [Bos taurus].
          Length = 449

 Score =  301 bits (771), Expect = 5e-82
 Identities = 162/219 (73%), Positives = 172/219 (78%), Gaps = 4/219 (1%)
 Frame = +3

Query: 192 MRSXXXXXXXXCAGQVIALPVNSPMNKGDTEVMKCIVEVISDTLSKPSPMPVSQECFETL 371
           MRS        CAGQVIALPVNSPMNKGDTEVMKCIVEVISDTLSKPSPMPVS+ECFETL
Sbjct: 1   MRSAAVLALLLCAGQVIALPVNSPMNKGDTEVMKCIVEVISDTLSKPSPMPVSKECFETL 60

Query: 372 RGDERILSILRHQNLLKELQDLALQGAKERSHQQKKQSSYEDELSEVLEKQNDQTELKEG 551
           RGDERILSILRHQNLLKELQDLALQGAKER+HQQKK SSYEDELSEVLEK NDQ E KE 
Sbjct: 61  RGDERILSILRHQNLLKELQDLALQGAKERTHQQKKHSSYEDELSEVLEKPNDQAEPKEV 120

Query: 552 TXXXXXXXXXXXRGDSKEVEKNDEDADGAKPQAS--LEPPQASEAEDQTPGEEEAA--ST 719
           T           R D KEVEK+DED+DG +PQAS  L P    E ++Q PGEEE A  + 
Sbjct: 121 TEEVSSKDAAEKRDDFKEVEKSDEDSDGDRPQASPGLGPGPKVEEDNQAPGEEEEAPSNA 180

Query: 720 HPLASLPSKKRPGAQAEEDHEGPSQGPVDREKGPSAKQG 836
           HPLASLPS K PG QA+ED EGPSQGP  REKG SA+QG
Sbjct: 181 HPLASLPSPKYPGPQAKEDSEGPSQGPASREKGLSAEQG 219


  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: 23,406,730
Number of extensions: 549849
Number of successful extensions: 3304
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3244
Number of HSP's successfully gapped: 1
Length of query: 280
Length of database: 17,681,374
Length adjustment: 101
Effective length of query: 179
Effective length of database: 14,339,486
Effective search space: 2566767994
Effective search space used: 2566767994
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-003248
         (840 letters)

Database: RefSeq49_CP.fasta 
           33,336 sequences; 18,874,504 total letters

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

 ***** No hits found ******


  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: 24,464,309
Number of extensions: 570005
Number of successful extensions: 3731
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3667
Number of HSP's successfully gapped: 0
Length of query: 280
Length of database: 18,874,504
Length adjustment: 101
Effective length of query: 179
Effective length of database: 15,507,568
Effective search space: 2775854672
Effective search space used: 2775854672
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)

Search to RefSeqHP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-003248
         (840 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_001266.1| chromogranin-A preproprotein [Homo sapiens].         288   4e-78

>ref|NP_001266.1| chromogranin-A preproprotein [Homo sapiens].
          Length = 457

 Score =  288 bits (737), Expect = 4e-78
 Identities = 158/222 (71%), Positives = 168/222 (75%), Gaps = 7/222 (3%)
 Frame = +3

Query: 192 MRSXXXXXXXXCAGQVIALPVNSPMNKGDTEVMKCIVEVISDTLSKPSPMPVSQECFETL 371
           MRS        CAGQV ALPVNSPMNKGDTEVMKCIVEVISDTLSKPSPMPVSQECFETL
Sbjct: 1   MRSAAVLALLLCAGQVTALPVNSPMNKGDTEVMKCIVEVISDTLSKPSPMPVSQECFETL 60

Query: 372 RGDERILSILRHQNLLKELQDLALQGAKERSHQQKKQSSYEDELSEVLEKQNDQTELKEG 551
           RGDERILSILRHQNLLKELQDLALQGAKER+HQQKK S +EDELSEVLE Q+ Q ELKE 
Sbjct: 61  RGDERILSILRHQNLLKELQDLALQGAKERAHQQKKHSGFEDELSEVLENQSSQAELKEA 120

Query: 552 TXXXXXXXXXXXRGDSKEVEKNDEDADGAKPQASLEPPQASEAE--DQTPG-----EEEA 710
                       R DSKE EK+ E  DGA+PQA  EP Q S+AE  +Q PG     EEEA
Sbjct: 121 VEEPSSKDVMEKREDSKEAEKSGEATDGARPQALPEPMQESKAEGNNQAPGEEEEEEEEA 180

Query: 711 ASTHPLASLPSKKRPGAQAEEDHEGPSQGPVDREKGPSAKQG 836
            +THP ASLPS+K PG QAE D EG SQG VDREKG SA+ G
Sbjct: 181 TNTHPPASLPSQKYPGPQAEGDSEGLSQGLVDREKGLSAEPG 222


  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: 23,926,502
Number of extensions: 552619
Number of successful extensions: 3321
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3267
Number of HSP's successfully gapped: 1
Length of query: 280
Length of database: 18,297,164
Length adjustment: 101
Effective length of query: 179
Effective length of database: 14,967,800
Effective search space: 2679236200
Effective search space used: 2679236200
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-003248
         (840 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_031719.1| chromogranin-A precursor [Mus musculus].             192   3e-49

>ref|NP_031719.1| chromogranin-A precursor [Mus musculus].
          Length = 463

 Score =  192 bits (488), Expect = 3e-49
 Identities = 116/238 (48%), Positives = 145/238 (60%), Gaps = 24/238 (10%)
 Frame = +3

Query: 192 MRSXXXXXXXXCAGQVIALPVNSPMNKGDTEVMKCIVEVISDTLSKPSPMPVSQECFETL 371
           MRS        CAGQV ALPVNSPM KGDT+VMKC++EVISD+LSKPSPMPVS EC ETL
Sbjct: 1   MRSTAVLALLLCAGQVFALPVNSPMTKGDTKVMKCVLEVISDSLSKPSPMPVSPECLETL 60

Query: 372 RGDERILSILRHQNLLKELQDLALQGAKERSHQQKKQ--------------------SSY 491
           +GDERILSILRHQNLLKELQDLALQGAKER+ Q  KQ                    SS+
Sbjct: 61  QGDERILSILRHQNLLKELQDLALQGAKERAQQPLKQQQPPKQQQQQQQQQQQEQQHSSF 120

Query: 492 EDELSEVLEKQNDQTELKEGTXXXXXXXXXXXRGDSKEVEKNDEDA--DGAKPQASLEPP 665
           EDELSEV E Q+   + ++             R DS + +++  +A  +G +PQA  EP 
Sbjct: 121 EDELSEVFENQSPDAKHRDAAAEVPSRDTMEKRKDSDKGQQDGFEATTEGPRPQAFPEPN 180

Query: 666 QASE--AEDQTPGEEEAASTHPLASLPSKKRPGAQAEEDHEGPSQGPVDREKGPSAKQ 833
           Q S    + ++PGE+ A +T    SLPS++    QA  D E   +G   +++   AKQ
Sbjct: 181 QESPMMGDSESPGEDTATNTQSPTSLPSQEHVDPQATGDSE---RGLSAQQQARKAKQ 235


  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: 20,085,848
Number of extensions: 454287
Number of successful extensions: 2650
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2554
Number of HSP's successfully gapped: 1
Length of query: 280
Length of database: 15,617,559
Length adjustment: 100
Effective length of query: 180
Effective length of database: 12,613,959
Effective search space: 2270512620
Effective search space used: 2270512620
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 33 (17.3 bits)

Search to RefSeqSP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-003248
         (840 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_001157477.2| chromogranin-A [Sus scrofa].                      385   e-107

>ref|NP_001157477.2| chromogranin-A [Sus scrofa].
          Length = 448

 Score =  385 bits (988), Expect = e-107
 Identities = 196/216 (90%), Positives = 197/216 (91%)
 Frame = +3

Query: 192 MRSXXXXXXXXCAGQVIALPVNSPMNKGDTEVMKCIVEVISDTLSKPSPMPVSQECFETL 371
           MRS        CAGQVIALPVNSPMNKGDTEVMKCIVEVISDTLSKPSPMPVSQECFETL
Sbjct: 1   MRSAAALALLLCAGQVIALPVNSPMNKGDTEVMKCIVEVISDTLSKPSPMPVSQECFETL 60

Query: 372 RGDERILSILRHQNLLKELQDLALQGAKERSHQQKKQSSYEDELSEVLEKQNDQTELKEG 551
           RGDERILSILRHQNLLKELQDLALQGAKERSHQQKKQSSYEDELSEVLEKQNDQTELKEG
Sbjct: 61  RGDERILSILRHQNLLKELQDLALQGAKERSHQQKKQSSYEDELSEVLEKQNDQTELKEG 120

Query: 552 TXXXXXXXXXXXRGDSKEVEKNDEDADGAKPQASLEPPQASEAEDQTPGEEEAASTHPLA 731
           T           RGDSKEVEKNDEDADGAKPQASLEPPQASEAEDQTPGEEEAASTHPLA
Sbjct: 121 TEEASSKEAAEKRGDSKEVEKNDEDADGAKPQASLEPPQASEAEDQTPGEEEAASTHPLA 180

Query: 732 SLPSKKRPGAQAEEDHEGPSQGPVDREKGPSAKQGP 839
           SLPSKKRPGAQAEEDHEGPSQGPVDREKGPSA+QGP
Sbjct: 181 SLPSKKRPGAQAEEDHEGPSQGPVDREKGPSAEQGP 216


  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: 15,113,355
Number of extensions: 354930
Number of successful extensions: 2092
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2062
Number of HSP's successfully gapped: 1
Length of query: 280
Length of database: 11,343,932
Length adjustment: 98
Effective length of query: 182
Effective length of database: 8,904,026
Effective search space: 1620532732
Effective search space used: 1620532732
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 33 (17.3 bits)

Search to Sscrofa10_2

BLASTN 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-003248
         (840 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_Chr07                                                         577   e-162

>Sscrofa_Chr07 
||          Length = 134764511

 Score =  577 bits (291), Expect = e-162
 Identities = 294/295 (99%)
 Strand = Plus / Plus

                                                                             
Query: 546       gagggcacagaagaggcgtcctccaaggaggctgcggaaaaaagaggagattctaaagag 605
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120962241 gagggcacagaagaggcgtcctccaaggaggctgcggaaaaaagaggagattctaaagag 120962300

                                                                             
Query: 606       gtggagaagaacgatgaagacgcagacggagccaagccccaggcctcgctggagccgccg 665
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120962301 gtggagaagaacgatgaagacgcagacggagccaagccccaggcctcgctggagccgccg 120962360

                                                                             
Query: 666       caggcctcggaggctgaggaccagaccccgggggaggaggaggccgccagcacccacccc 725
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120962361 caggcctcggaggctgaggaccagaccccgggggaggaggaggccgccagcacccacccc 120962420

                                                                             
Query: 726       ttagccagccttcccagcaagaaacgcccaggcgcacaggccgaggaggaccacgagggc 785
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120962421 ttagccagccttcccagcaagaaacgcccaggcgcacaggccgaggaggaccacgagggc 120962480

                                                                        
Query: 786       ccctcccagggtccggtggacagagagaagggcccgagtgcaaagcaggggccgc 840
                 |||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 120962481 ccctcccagggtccggtggacagagagaagggcccgagtgcagagcaggggccgc 120962535



 Score =  470 bits (237), Expect = e-130
 Identities = 237/237 (100%)
 Strand = Plus / Plus

                                                                             
Query: 1         tgcagtgccagagtcctgtgccgagaggaggtgggcaggtccccaggcgggcgcgcacgg 60
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120954035 tgcagtgccagagtcctgtgccgagaggaggtgggcaggtccccaggcgggcgcgcacgg 120954094

                                                                             
Query: 61        agacgttgcgccccccatcccgcgccagtgtcgccgcagcccgccccgagcgaccagtcc 120
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120954095 agacgttgcgccccccatcccgcgccagtgtcgccgcagcccgccccgagcgaccagtcc 120954154

                                                                             
Query: 121       agctacccctcgcccgcgtgctcgccgcgcccggccccagaccgccagctgctccgcgcc 180
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120954155 agctacccctcgcccgcgtgctcgccgcgcccggccccagaccgccagctgctccgcgcc 120954214

                                                                          
Query: 181       ccgggttcgccatgcgctccgccgccgccctggcgctactgctctgcgccgggcaag 237
                 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120954215 ccgggttcgccatgcgctccgccgccgccctggcgctactgctctgcgccgggcaag 120954271



 Score =  200 bits (101), Expect = 9e-49
 Identities = 101/101 (100%)
 Strand = Plus / Plus

                                                                             
Query: 446       aggagccaaggagaggtcccatcagcagaagaaacagagcagttatgaggatgaactctc 505
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120959810 aggagccaaggagaggtcccatcagcagaagaaacagagcagttatgaggatgaactctc 120959869

                                                          
Query: 506       agaggttctcgagaagcagaacgaccagactgagttgaagg 546
                 |||||||||||||||||||||||||||||||||||||||||
Sbjct: 120959870 agaggttctcgagaagcagaacgaccagactgagttgaagg 120959910



 Score =  190 bits (96), Expect = 8e-46
 Identities = 96/96 (100%)
 Strand = Plus / Plus

                                                                             
Query: 283       aggtgatgaagtgcatcgtcgaggtcatctctgacacgctgtccaagcccagccccatgc 342
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120957486 aggtgatgaagtgcatcgtcgaggtcatctctgacacgctgtccaagcccagccccatgc 120957545

                                                     
Query: 343       ctgtcagccaggagtgttttgagacactccgaggag 378
                 ||||||||||||||||||||||||||||||||||||
Sbjct: 120957546 ctgtcagccaggagtgttttgagacactccgaggag 120957581



 Score =  143 bits (72), Expect = 2e-31
 Identities = 72/72 (100%)
 Strand = Plus / Plus

                                                                             
Query: 377       agatgaacggatcctctccatcctgcgacatcagaatttgctgaaagagctccaagacct 436
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120958440 agatgaacggatcctctccatcctgcgacatcagaatttgctgaaagagctccaagacct 120958499

                             
Query: 437       cgctctccaagg 448
                 ||||||||||||
Sbjct: 120958500 cgctctccaagg 120958511



 Score =  101 bits (51), Expect = 6e-19
 Identities = 51/51 (100%)
 Strand = Plus / Plus

                                                                    
Query: 236       agtcattgccctccctgtgaacagccctatgaataagggggacaccgaggt 286
                 |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120955102 agtcattgccctccctgtgaacagccctatgaataagggggacaccgaggt 120955152


  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: 19,831,308
Number of extensions: 123
Number of successful extensions: 123
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 123
Number of HSP's successfully gapped: 6
Length of query: 840
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 819
Effective length of database: 2,808,413,156
Effective search space: 2300090374764
Effective search space used: 2300090374764
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)