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Dicty_cDB
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U12509-1
Contig ID Contig-U12509-1
Contig update 2002.12.18
Contig sequence 
>Contig-U12509-1 (Contig-U12509-1Q) /CSM_Contig/Contig-U12509-1Q.Seq.d
AAATTTTTTTTTTATTTTATTATAATATAATAAATAATAATAAAATAAAA
AAATAATAGAAATAATAATAATAAATAAATAAAGCAATGGTTTCACATAT
TGCAGCATCAGTACTTACAAAGTACTTGGGAGATTATGTGGATGATTTAA
ATAAAGATAATATAAAATTATCATTTCTTTCAGGTGAAGCAGTATTACAA
GATTTAAAAATAAAAAAAACTGTATTACAATCATTTCTTCCAAATGTCAT
TGTAAAACAAGCAATTATAAAGAAATTATCATTACATGTACCTTGGAAAG
ATTTAAAAGGTAAACCAGCTATTATAAAGATAGAGGGTATATATGTACTG
GCAGAGACTAGTGTANAATTTGATGAACAATATTATAAAAAGAAATTTCA
AGATGAAAAACAAGCGAAATTACATATACAAGAAGTATTAAGATTAAATA
AACAACAATTAAAAAATCCACACCAATCAACAACGACAACGACGACGACA
AGTGATGAATCAAATACATTTGGTAGTAAATTATTACAAACAGTTGTTGA
TAATTTACAATTGTATATTGACTCTGTTCATATTANATNNNNNNNNN---
-------NNNNNNNNNNGGATGGTTATCATCATGGTGGAAACCAATTGTA
AATACAAGTGTACCAATAACAGCAGCAACAACAACAACTACAGCGACAAA
TACAGATTCAACAATAACAAAATTAAAAGATATTAAATTATCTAAAGATG
ATTGGAATGAAATTTATGATACTATAGGGTATGATGAAAATGATGATATT
ATTAACAGCAATGTCGCTTCTTTACAACAACCTAAACAATTTGGTAAAGA
TTTTTCAAATATAATAAAGACAGTGATTAATTTTAGATTAGTACAGGGTG
GTTTAAAATTGAAAAAGAAGAGGAGAACTATTGCATTACTTCAATTAAAT
GATATTTCACTATCACTTAAATCCAAAATAAATTCATCATTCGTATTCAA
CGGTAATTTAAAAGGTTTAGAATTAATTGATCAATCAACTTTTAATACTC
AATTCCCAAAATTAATATCACCATTACTAAAAAGAAATTCATCCCCAATA
CCTACAAAAATAATATCACAACCACCAATTTTTAATATTACATTAGAGAG
TCATTCACTTTCTTCAACAATAACATCATCCACAACAACAGCAACAACAA
CACAATCAACATCAACAAATAGTAATAATAATAATAATATTAAAGTAAAT
TATAGTTTATCAATTCAATCAAAACCATTAACTATTGTTTATTATCCTAA
ATTTATATCAACAGTAAATGATTTCTTTTTTAAGAAAGAAGAGATCAA
Gap gap included
Contig length 1338
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 1488380
End point 1489700
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 2
Link to clone list U12509
List of clone(s) 

est1=VHJ595F,1,588
est2=VHJ595Z,589,1320
Translated Amino Acid sequence 
ifflfyyniinnnkikk**k****INKAMVSHIAASVLTKYLGDYVDDLNKDNIKLSFLS
GEAVLQDLKIKKTVLQSFLPNVIVKQAIIKKLSLHVPWKDLKGKPAIIKIEGIYVLAETS
VXFDEQYYKKKFQDEKQAKLHIQEVLRLNKQQLKNPHQSTTTTTTTSDESNTFGSKLLQT
VVDNLQLYIDSVHIXXXX---

---XXXGWLSSWWKPIVNTSVPITAATTTTTATNTDSTITKLKDIKLSKDDWNEIYDTIG
YDENDDIINSNVASLQQPKQFGKDFSNIIKTVINFRLVQGGLKLKKKRRTIALLQLNDIS
LSLKSKINSSFVFNGNLKGLELIDQSTFNTQFPKLISPLLKRNSSPIPTKIISQPPIFNI
TLESHSLSSTITSSTTTATTTQSTSTNSNNNNNIKVNYSLSIQSKPLTIVYYPKFISTVN
DFFFKKEEI
Translated Amino Acid sequence (All Frames) 
Frame A:
kfffyfiii**iiik*knnrnnnnk*ikqwfhilqhqylqstweimwmi*ikii*nyhff
qvkqyyki*k*kklyynhffqmsl*nkql*rnyhymylgki*kvnqll*r*rvymywqrl
vxnlmnniikrnfkmknkrnyiykky*d*innn*kihtnqqrqrrrqvmnqihlvvnyyk
qlliiynciltlfilxxxx---

---xxxxmviimvetnckykctnnssnnnnysdkyrfnnnkikry*ii*r*le*nl*yyr
v**k**yy*qqcrffttt*tiw*rffkynkdsd*f*istgwfkiekeeenycitsik*yf
tit*iqnkfiiriqr*fkrfrin*sinf*ysipkinititkkkfipntyknnitttnf*y
yiresftffnnniihnnsnnntinink******y*skl*finsiktinyclls*iyinsk
*flf*errdq

Frame B:
nfffill*ynk***nkkiieiiiink*sngftycsistykvlgrlcg*fk*r*ykiiisf
r*ssitrfknkkncitiisskchcktsnykeiiitctlerfkr*tsyykdrgyictgrd*
cxi**til*keisr*ktseitytrsikik*ttikkstpinndndddk**ikyiw**iitn
sc**ftivy*lcsyxxxx---

---XXXGWLSSWWKPIVNTSVPITAATTTTTATNTDSTITKLKDIKLSKDDWNEIYDTIG
YDENDDIINSNVASLQQPKQFGKDFSNIIKTVINFRLVQGGLKLKKKRRTIALLQLNDIS
LSLKSKINSSFVFNGNLKGLELIDQSTFNTQFPKLISPLLKRNSSPIPTKIISQPPIFNI
TLESHSLSSTITSSTTTATTTQSTSTNSNNNNNIKVNYSLSIQSKPLTIVYYPKFISTVN
DFFFKKEEI

Frame C:
ifflfyyniinnnkikk**k****INKAMVSHIAASVLTKYLGDYVDDLNKDNIKLSFLS
GEAVLQDLKIKKTVLQSFLPNVIVKQAIIKKLSLHVPWKDLKGKPAIIKIEGIYVLAETS
VXFDEQYYKKKFQDEKQAKLHIQEVLRLNKQQLKNPHQSTTTTTTTSDESNTFGSKLLQT
VVDNLQLYIDSVHIXXXX---

---xxxdgyhhggnql*iqvyq*qqqqqqlqrqiqiqq*qn*kilnylkmigmkfmil*g
mmkmmilltamsllynnlnnlvkifqi**rq*lild*yrvv*n*krrgellhyfn*mifh
yhlnpk*ihhsystvi*kv*n*linqllilnsqn*yhhy*keihpqylqk*yhnhqflil
h*rvihflqq*hhpqqqqqqhnqhqqiviiiiilk*iivyqfnqnh*llfiilnlyqq*m
isflrkkrs
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U12509-1 (Contig-U12509-1Q)
/CSM_Contig/Contig-U12509-1Q.Seq.d
         (1348 letters)

Database: CSM
           6905 sequences; 5,674,871 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U12509-1 (Contig-U12509-1Q) /CSM_Contig/Conti...  1080  0.0
Contig-U11530-1 (Contig-U11530-1Q) /CSM_Contig/Conti...    48  3e-05
Contig-U09610-1 (Contig-U09610-1Q) /CSM_Contig/Conti...    44  4e-04
Contig-U14782-1 (Contig-U14782-1Q) /CSM_Contig/Conti...    42  0.002
Contig-U13967-1 (Contig-U13967-1Q) /CSM_Contig/Conti...    42  0.002
Contig-U13650-1 (Contig-U13650-1Q) /CSM_Contig/Conti...    42  0.002
Contig-U12755-1 (Contig-U12755-1Q) /CSM_Contig/Conti...    42  0.002
Contig-U12467-1 (Contig-U12467-1Q) /CSM_Contig/Conti...    42  0.002
Contig-U12465-1 (Contig-U12465-1Q) /CSM_Contig/Conti...    42  0.002
Contig-U14551-1 (Contig-U14551-1Q) /CSM_Contig/Conti...    36  0.096

>Contig-U12509-1 (Contig-U12509-1Q) /CSM_Contig/Contig-U12509-1Q.Seq.d
          Length = 1348

 Score = 1080 bits (545), Expect = 0.0
 Identities = 545/545 (100%)
 Strand = Plus / Plus

                                                                        
Query: 618  ggatggttatcatcatggtggaaaccaattgtaaatacaagtgtaccaataacagcagca 677
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 618  ggatggttatcatcatggtggaaaccaattgtaaatacaagtgtaccaataacagcagca 677

                                                                        
Query: 678  acaacaacaactacagcgacaaatacagattcaacaataacaaaattaaaagatattaaa 737
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 678  acaacaacaactacagcgacaaatacagattcaacaataacaaaattaaaagatattaaa 737

                                                                        
Query: 738  ttatctaaagatgattggaatgaaatttatgatactatagggtatgatgaaaatgatgat 797
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 738  ttatctaaagatgattggaatgaaatttatgatactatagggtatgatgaaaatgatgat 797

                                                                        
Query: 798  attattaacagcaatgtcgcttctttacaacaacctaaacaatttggtaaagatttttca 857
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 798  attattaacagcaatgtcgcttctttacaacaacctaaacaatttggtaaagatttttca 857

                                                                        
Query: 858  aatataataaagacagtgattaattttagattagtacagggtggtttaaaattgaaaaag 917
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 858  aatataataaagacagtgattaattttagattagtacagggtggtttaaaattgaaaaag 917

                                                                        
Query: 918  aagaggagaactattgcattacttcaattaaatgatatttcactatcacttaaatccaaa 977
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 918  aagaggagaactattgcattacttcaattaaatgatatttcactatcacttaaatccaaa 977

                                                                        
Query: 978  ataaattcatcattcgtattcaacggtaatttaaaaggtttagaattaattgatcaatca 1037
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 978  ataaattcatcattcgtattcaacggtaatttaaaaggtttagaattaattgatcaatca 1037

                                                                        
Query: 1038 acttttaatactcaattcccaaaattaatatcaccattactaaaaagaaattcatcccca 1097
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1038 acttttaatactcaattcccaaaattaatatcaccattactaaaaagaaattcatcccca 1097

                                                                        
Query: 1098 atacctacaaaaataatatcacaaccaccaatttttaatattacattagagagtcattca 1157
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1098 atacctacaaaaataatatcacaaccaccaatttttaatattacattagagagtcattca 1157

                 
Query: 1158 ctttc 1162
            |||||
Sbjct: 1158 ctttc 1162


 Score =  720 bits (363), Expect = 0.0
 Identities = 366/366 (100%)
 Strand = Plus / Plus

                                                                       
Query: 220 ctgtattacaatcatttcttccaaatgtcattgtaaaacaagcaattataaagaaattat 279
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 220 ctgtattacaatcatttcttccaaatgtcattgtaaaacaagcaattataaagaaattat 279

                                                                       
Query: 280 cattacatgtaccttggaaagatttaaaaggtaaaccagctattataaagatagagggta 339
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 280 cattacatgtaccttggaaagatttaaaaggtaaaccagctattataaagatagagggta 339

                                                                       
Query: 340 tatatgtactggcagagactagtgtanaatttgatgaacaatattataaaaagaaatttc 399
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 340 tatatgtactggcagagactagtgtanaatttgatgaacaatattataaaaagaaatttc 399

                                                                       
Query: 400 aagatgaaaaacaagcgaaattacatatacaagaagtattaagattaaataaacaacaat 459
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 400 aagatgaaaaacaagcgaaattacatatacaagaagtattaagattaaataaacaacaat 459

                                                                       
Query: 460 taaaaaatccacaccaatcaacaacgacaacgacgacgacaagtgatgaatcaaatacat 519
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 460 taaaaaatccacaccaatcaacaacgacaacgacgacgacaagtgatgaatcaaatacat 519

                                                                       
Query: 520 ttggtagtaaattattacaaacagttgttgataatttacaattgtatattgactctgttc 579
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 520 ttggtagtaaattattacaaacagttgttgataatttacaattgtatattgactctgttc 579

                 
Query: 580 atatta 585
           ||||||
Sbjct: 580 atatta 585


 Score =  242 bits (122), Expect = 8e-64
 Identities = 122/122 (100%)
 Strand = Plus / Plus

                                                                       
Query: 84  gcaatggtttcacatattgcagcatcagtacttacaaagtacttgggagattatgtggat 143
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 84  gcaatggtttcacatattgcagcatcagtacttacaaagtacttgggagattatgtggat 143

                                                                       
Query: 144 gatttaaataaagataatataaaattatcatttctttcaggtgaagcagtattacaagat 203
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 144 gatttaaataaagataatataaaattatcatttctttcaggtgaagcagtattacaagat 203

             
Query: 204 tt 205
           ||
Sbjct: 204 tt 205


 Score =  216 bits (109), Expect = 5e-56
 Identities = 109/109 (100%)
 Strand = Plus / Plus

                                                                        
Query: 1240 ttaaagtaaattatagtttatcaattcaatcaaaaccattaactattgtttattatccta 1299
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1240 ttaaagtaaattatagtttatcaattcaatcaaaaccattaactattgtttattatccta 1299

                                                             
Query: 1300 aatttatatcaacagtaaatgatttcttttttaagaaagaagagatcaa 1348
            |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1300 aatttatatcaacagtaaatgatttcttttttaagaaagaagagatcaa 1348


 Score = 30.2 bits (15), Expect = 5.9
 Identities = 18/19 (94%)
 Strand = Plus / Plus

                               
Query: 668  aacagcagcaacaacaaca 686
            |||| ||||||||||||||
Sbjct: 1184 aacaacagcaacaacaaca 1202


>Contig-U11530-1 (Contig-U11530-1Q) /CSM_Contig/Contig-U11530-1Q.Seq.d
          Length = 1393

 Score = 48.1 bits (24), Expect = 3e-05
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                       
Query: 678 acaacaacaactacagcgacaaatacag 705
           ||||||||||| ||||||||||||||||
Sbjct: 134 acaacaacaacaacagcgacaaatacag 161


 Score = 40.1 bits (20), Expect = 0.006
 Identities = 23/24 (95%)
 Strand = Plus / Plus

                                   
Query: 682 caacaactacagcgacaaatacag 705
           ||||||| ||||||||||||||||
Sbjct: 162 caacaacaacagcgacaaatacag 185


 Score = 32.2 bits (16), Expect = 1.5
 Identities = 16/16 (100%)
 Strand = Plus / Plus

                           
Query: 673 cagcaacaacaacaac 688
           ||||||||||||||||
Sbjct: 183 cagcaacaacaacaac 198


 Score = 32.2 bits (16), Expect = 1.5
 Identities = 19/20 (95%)
 Strand = Plus / Plus

                               
Query: 669 acagcagcaacaacaacaac 688
           |||||| |||||||||||||
Sbjct: 182 acagcaacaacaacaacaac 201


>Contig-U09610-1 (Contig-U09610-1Q) /CSM_Contig/Contig-U09610-1Q.Seq.d
          Length = 1160

 Score = 44.1 bits (22), Expect = 4e-04
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                 
Query: 664 caataacagcagcaacaacaac 685
           ||||||||||||||||||||||
Sbjct: 429 caataacagcagcaacaacaac 450


 Score = 32.2 bits (16), Expect = 1.5
 Identities = 16/16 (100%)
 Strand = Plus / Plus

                           
Query: 671 agcagcaacaacaaca 686
           ||||||||||||||||
Sbjct: 4   agcagcaacaacaaca 19


  Database: CSM
    Posted date:  Jun 9, 2004  7:35 PM
  Number of letters in database: 5,674,871
  Number of sequences in database:  6905
  
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 Hits to DB: 33,023
Number of Sequences: 6905
Number of extensions: 33023
Number of successful extensions: 7546
Number of sequences better than 10.0: 667
length of query: 1348
length of database: 5,674,871
effective HSP length: 16
effective length of query: 1332
effective length of database: 5,564,391
effective search space: 7411768812
effective search space used: 7411768812
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)
dna update 2008.12. 1
Homology vs DNA 
Query= Contig-U12509-1 (Contig-U12509-1Q) /CSM_Contig/Contig-U12509-1Q.Seq.d
         (1348 letters)

Database: ddbj_A
           92,845,959 sequences; 95,242,211,685 total letters

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

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

(BJ442772) Dictyostelium discoideum cDNA clone:ddv50m23, 3' ...   878   0.0    3
(AF079445) Dictyostelium discoideum TipC (tipC) gene, comple...   870   0.0    6
(BJ423949) Dictyostelium discoideum cDNA clone:ddv50m23, 5' ...   720   0.0    2
(AC116984) Dictyostelium discoideum chromosome 2 map 2567470...    36   1e-06  20
(BX293980) Mycoplasma mycoides subsp. mycoides SC str. PG1, ...    38   8e-04  19
(CP001056) Clostridium botulinum B str. Eklund 17B, complete...    40   0.002  20
(AC117176) Dictyostelium discoideum chromosome 2 map 5018074...    36   0.005  12
(CP000123) Mycoplasma capricolum subsp. capricolum ATCC 2734...    32   0.007  18
(CP001078) Clostridium botulinum E3 str. Alaska E43, complet...    36   0.008  22
(AE017263) Mesoplasma florum L1 complete genome.                   38   0.010  20
(FH370202) CHO_OF4516xf12f1.ab1 CHO_OF4 Nicotiana tabacum ge...    36   0.013  3
(CR050702) Forward strand read from insert in 3'HPRT inserti...    44   0.017  2
(AE014848) Plasmodium falciparum 3D7 chromosome 12, section ...    40   0.045  10
(AP009180) Candidatus Carsonella ruddii PV DNA, complete gen...    34   0.047  11
(AC114901) Mus musculus chromosome 3, clone RP23-33I24, comp...    38   0.077  4
(AE014824) Plasmodium falciparum 3D7 chromosome 14 section 9...    30   0.095  15
(AC130148) Rattus norvegicus clone CH230-49B15, *** SEQUENCI...    40   0.13   2
(AC219701) Bos taurus clone CH240-325K13, WORKING DRAFT SEQU...    40   0.13   2
(AC006279) Plasmodium falciparum chromosome 12 clone 3D7, **...    34   0.14   11
(AC196748) Citrus sinensis clone CSRBBa-013G11, WORKING DRAF...    38   0.15   13
(AE014820) Plasmodium falciparum 3D7 chromosome 14 section 5...    32   0.16   13
(AC148576) Dasypus novemcinctus clone VMRC5-419L14, WORKING ...    42   0.17   3
(AL844509) Plasmodium falciparum chromosome 13.                    38   0.18   15
(CP000942) Ureaplasma parvum serovar 3 str. ATCC 27815, comp...    34   0.21   21
(AE014837) Plasmodium falciparum 3D7 chromosome 11 section 2...    42   0.21   12
(AC201727) Atelerix albiventris clone LB4-366M3, WORKING DRA...    50   0.22   1
(AC175629) Atelerix albiventris clone LB4-291J20, WORKING DR...    50   0.22   1
(CR211421) Forward strand read from insert in 5'HPRT inserti...    50   0.22   1
(DY917674) CHAY13468.b1_G07.ab1 CHA(XYZ) common wild sunflow...    50   0.22   1
(AC116920) Dictyostelium discoideum chromosome 2 map 4415041...    34   0.22   10
(CU469464) Candidatus Phytoplasma mali strain AT complete ch...    36   0.23   16
(AC004153) Plasmodium falciparum chromosome 12 clone 3D7, **...    32   0.25   14
(AC116956) Dictyostelium discoideum chromosome 2 map 1418423...    32   0.27   13
(AC141739) Apis mellifera clone CH224-58F14, WORKING DRAFT S...    42   0.35   5
(AX344564) Sequence 15 from Patent WO0200932.                      34   0.38   14
(CP000061) Aster yellows witches'-broom phytoplasma AYWB, co...    40   0.44   16
(AC004157) Plasmodium falciparum chromosome 12 clone 3D7, **...    42   0.45   8
(AC179344) Strongylocentrotus purpuratus clone R3-1102G17, W...    36   0.49   2
(AC117072) Dictyostelium discoideum chromosome 2 map 3879572...    34   0.51   10
(AF298624) Dictyostelium discoideum chromosome 2 repeat region.    40   0.55   4
(CU638691) S.lycopersicum DNA sequence *** SEQUENCING IN PRO...    38   0.56   5
(CP000263) Buchnera aphidicola str. Cc (Cinara cedri), compl...    32   0.68   14
(AM435080) Vitis vinifera, whole genome shotgun sequence, co...    48   0.68   4
(EA048112) Sequence 3 from patent US 7154021.                      32   0.70   13
(EA048111) Sequence 2 from patent US 7154021.                      32   0.70   13
(AX196296) Sequence 3 from Patent WO0151627.                       32   0.70   13
(AX196295) Sequence 2 from Patent WO0151627.                       32   0.70   13
(AL929353) Plasmodium falciparum strain 3D7, chromosome 5, s...    32   0.84   14
(CR318660) Zebrafish DNA sequence from clone CH211-149I8 in ...    48   0.87   1
(AC209273) Populus trichocarpa clone POP075-L10, complete se...    48   0.87   1
(EA266464) Sequence 685 from patent US 7241867.                    48   0.87   1
(EA266116) Sequence 306 from patent US 7241867.                    48   0.87   1
(DD419616) GENES OF AN OTITIS MEDIA ISOLATE OF NONTYPEABLE H...    48   0.87   1
(DD419268) GENES OF AN OTITIS MEDIA ISOLATE OF NONTYPEABLE H...    48   0.87   1
(CS219198) Sequence 1213 from Patent WO2005111066.                 48   0.87   1
(CQ873072) Sequence 685 from Patent WO2004078949.                  48   0.87   1
(CQ872693) Sequence 306 from Patent WO2004078949.                  48   0.87   1
(BD426631) The Nucleotide Sequence of the Haemophilus influe...    48   0.87   1
(BD426049) The Nucleotide Sequence of the Haemophilus influe...    48   0.87   1
(AR632719) Sequence 1 from patent US 6846651.                      48   0.87   1
(AR274513) Sequence 1 from patent US 6506581.                      48   0.87   1
(AC142000) Rattus norvegicus clone CH230-269M19, *** SEQUENC...    48   0.87   1
(AC117964) Rattus norvegicus clone CH230-360M14, WORKING DRA...    48   0.87   1
(BX511255) Zebrafish DNA sequence *** SEQUENCING CANCELLED *...    48   0.87   1
(AC167778) Bos taurus clone CH240-191A4, *** SEQUENCING IN P...    48   0.87   1
(ET072045) QM0AAA6BE10FM1 CCL1 Citrus clementina genomic clo...    48   0.87   1
(EJ650710) 1092953009756 Global-Ocean-Sampling_GS-30-02-01-1...    48   0.87   1
(EJ630702) 1092963383234 Global-Ocean-Sampling_GS-29-01-01-1...    48   0.87   1
(EJ629654) 1092963311531 Global-Ocean-Sampling_GS-29-01-01-1...    48   0.87   1
(EI844362) POTH210TR Solanum tuberosum RHPOTKEY BAC ends Sol...    48   0.87   1
(ED194619) AUAC-aai31f06.b1 Ascaris suum whole genome shotgu...    48   0.87   1
(DH500257) Monosiga ovata DNA, fosmid clone: MOF-067N14, gen...    48   0.87   1
(DH488765) Monosiga ovata DNA, fosmid clone: MOF-047J08, gen...    48   0.87   1
(ES591683) 000001601952_K04.ab1 Eucalyptus globulus under lo...    48   0.87   1
(EL487100) CHUS2317.b1_I03.ab1 CHU(LMS) puzzle sunflower Hel...    48   0.87   1
(EC996890) WIN119.C21_K16 Muscat Hamburg pre-veraison berry ...    48   0.87   1
(EC985644) WIN1125.C21_G20 Muscat Hamburg pre-veraison berry...    48   0.87   1
(EC817298) SEE00005422 Seculamonas ecuadoriensis Company (ST...    48   0.87   1
(CU565134) Spc_11YD23 cDNA clone of Developmental Stages Lib...    48   0.87   1
(CB284589) DF1352 Dermatophagoides farinae cDNA library Derm...    48   0.87   1
(L42023) Haemophilus influenzae Rd KW20, complete genome.          48   0.87   1
(CP000721) Clostridium beijerinckii NCIMB 8052, complete gen...    48   0.87   1
(CP000672) Haemophilus influenzae PittGG, complete genome.         48   0.87   1
(CP000671) Haemophilus influenzae PittEE, complete genome.         48   0.87   1
(CP000057) Haemophilus influenzae 86-028NP, complete genome.       48   0.87   1
(AP006628) Onion yellows phytoplasma OY-M DNA, complete genome.    32   1.1    21
(DD010735) Diagnosis of known genetic Parameters within the ...    34   1.1    15
(AL928936) Zebrafish DNA sequence from clone CH211-133H2 in ...    32   1.1    9
(EJ202098) 1092344309080 Global-Ocean-Sampling_GS-27-01-01-1...    38   1.1    2
(AE014831) Plasmodium falciparum 3D7 chromosome 10 section 3...    32   1.2    11
(AC117011) Rattus norvegicus clone CH230-341F6, *** SEQUENCI...    36   1.3    8
(AL049181) Plasmodium falciparum DNA *** SEQUENCING IN PROGR...    34   1.3    11
(AM427995) Vitis vinifera contig VV78X219780.10, whole genom...    34   1.5    5
(AC116305) Dictyostelium discoideum chromosome 2 map 1005175...    34   1.5    16
(CP000361) Arcobacter butzleri RM4018, complete genome.            34   1.9    23
(CR392036) Zebrafish DNA sequence from clone DKEYP-23F6 in l...    40   1.9    6
(AE017308) Mycoplasma mobile 163K complete genome.                 34   2.0    21
(AC148653) Medicago truncatula chromosome unknown clone mte1...    38   2.0    6
(AL591909) Human DNA sequence from clone RP11-56G6 on chromo...    44   2.1    3
(CW920695) EDCAI20TF A. castellanii, 6-8 kb library from tot...    32   2.3    2

>(BJ442772) Dictyostelium discoideum cDNA clone:ddv50m23, 3' end,
            single read.
          Length = 732

 Score =  878 bits (443), Expect(3) = 0.0
 Identities = 443/443 (100%)
 Strand = Plus / Minus


Query: 721  aattaaaagatattaaattatctaaagatgattggaatgaaatttatgatactatagggt 780
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 629  aattaaaagatattaaattatctaaagatgattggaatgaaatttatgatactatagggt 570


Query: 781  atgatgaaaatgatgatattattaacagcaatgtcgcttctttacaacaacctaaacaat 840
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 569  atgatgaaaatgatgatattattaacagcaatgtcgcttctttacaacaacctaaacaat 510


Query: 841  ttggtaaagatttttcaaatataataaagacagtgattaattttagattagtacagggtg 900
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 509  ttggtaaagatttttcaaatataataaagacagtgattaattttagattagtacagggtg 450


Query: 901  gtttaaaattgaaaaagaagaggagaactattgcattacttcaattaaatgatatttcac 960
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 449  gtttaaaattgaaaaagaagaggagaactattgcattacttcaattaaatgatatttcac 390


Query: 961  tatcacttaaatccaaaataaattcatcattcgtattcaacggtaatttaaaaggtttag 1020
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 389  tatcacttaaatccaaaataaattcatcattcgtattcaacggtaatttaaaaggtttag 330


Query: 1021 aattaattgatcaatcaacttttaatactcaattcccaaaattaatatcaccattactaa 1080
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 329  aattaattgatcaatcaacttttaatactcaattcccaaaattaatatcaccattactaa 270


Query: 1081 aaagaaattcatccccaatacctacaaaaataatatcacaaccaccaatttttaatatta 1140
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 269  aaagaaattcatccccaatacctacaaaaataatatcacaaccaccaatttttaatatta 210


Query: 1141 cattagagagtcattcactttct 1163
            |||||||||||||||||||||||
Sbjct: 209  cattagagagtcattcactttct 187

 Score =  216 bits (109), Expect(3) = 0.0
 Identities = 109/109 (100%)
 Strand = Plus / Minus


Query: 1240 ttaaagtaaattatagtttatcaattcaatcaaaaccattaactattgtttattatccta 1299
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 110  ttaaagtaaattatagtttatcaattcaatcaaaaccattaactattgtttattatccta 51


Query: 1300 aatttatatcaacagtaaatgatttcttttttaagaaagaagagatcaa 1348
            |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50   aatttatatcaacagtaaatgatttcttttttaagaaagaagagatcaa 2

 Score = 87.7 bits (44), Expect(3) = 0.0
 Identities = 44/44 (100%)
 Strand = Plus / Minus


Query: 620 atggttatcatcatggtggaaaccaattgtaaatacaagtgtac 663
           ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 730 atggttatcatcatggtggaaaccaattgtaaatacaagtgtac 687

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 1,577,443,163
Number of extensions: 102346998
Number of successful extensions: 8901345
Number of sequences better than 10.0: 252
Length of query: 1348
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 1324
Effective length of database: 97,308,875,965
Effective search space: 128836951777660
Effective search space used: 128836951777660
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7. 3
Homology vs Protein 
Query= Contig-U12509-1 (Contig-U12509-1Q) /CSM_Contig/Contig-U12509-1Q.Seq.d
         (1348 letters)

Database: nrp_B
           3,236,559 sequences; 1,051,180,864 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AF079445_1(AF079445|pid:none) Dictyostelium discoideum TipC (tip...   316   1e-84
(Q54LB8) RecName: Full=Putative vacuolar protein sorting-associa...   105   5e-21
AB281678_1(AB281678|pid:none) Mus musculus vps13c 5' variant III...    93   3e-17
AJ608770_1(AJ608770|pid:none) Homo sapiens mRNA for VPS13C prote...    92   4e-17
AC116957_69(AC116957|pid:none) Dictyostelium discoideum chromoso...    91   1e-16
AB281677_1(AB281677|pid:none) Mus musculus vps13c 5' variant II ...    89   3e-16
FN392319_519(FN392319|pid:none) Pichia pastoris GS115 chromosome...    89   5e-16
AE013599_447(AE013599|pid:none) Drosophila melanogaster chromoso...    89   5e-16
Z80220_4(Z80220|pid:none) Caenorhabditis elegans Cosmid T08G11, ...    87   1e-15
T24692(T24692) hypothetical protein T08G11.1 - Caenorhabditis el...    87   1e-15
(Q709C8) RecName: Full=Vacuolar protein sorting-associated prote...    86   4e-15
AB037842_1(AB037842|pid:none) Homo sapiens mRNA for KIAA1421 pro...    86   4e-15
AK048766_1(AK048766|pid:none) Mus musculus 0 day neonate cerebel...    83   2e-14
BC077364_1(BC077364|pid:none) Xenopus laevis hypothetical protei...    83   3e-14
T15628(T15628)hypothetical protein C25H3.9 - Caenorhabditis eleg...    83   3e-14
FM992691_533(FM992691|pid:none) Candida dubliniensis CD36 chromo...    82   3e-14
U29535_11(U29535|pid:none) Caenorhabditis elegans cosmid C25H3, ...    81   8e-14
FN357331_29(FN357331|pid:none) Schistosoma mansoni genome sequen...    80   2e-13
BC163680_1(BC163680|pid:none) Danio rerio vacuolar protein sorti...    80   2e-13
BX005248_5(BX005248|pid:none) Zebrafish DNA sequence from clone ...    80   2e-13
(Q54KX3) RecName: Full=Putative vacuolar protein sorting-associa...    80   2e-13
CR382132_294(CR382132|pid:none) Yarrowia lipolytica strain CLIB1...    80   2e-13
AP008208_1254(AP008208|pid:none) Oryza sativa (japonica cultivar...    79   5e-13
(Q9H995) RecName: Full=Vacuolar protein sorting-associated prote...    78   6e-13
AJ608769_1(AJ608769|pid:none) Homo sapiens mRNA for chorein 2A (...    78   6e-13
AF337532_1(AF337532|pid:none) Homo sapiens chorea-acanthocytosis...    78   6e-13
(Q07878) RecName: Full=Vacuolar protein sorting-associated prote...    77   1e-12
Z73144_1(Z73144|pid:none) S.cerevisiae chromosome XII reading fr...    77   1e-12
CR382125_24(CR382125|pid:none) Kluyveromyces lactis strain NRRL ...    77   2e-12
CU928179_318(CU928179|pid:none) Zygosaccharomyces rouxii strain ...    77   2e-12
CR380949_126(CR380949|pid:none) Candida glabrata strain CBS138 c...    76   3e-12
AK052697_1(AK052697|pid:none) Mus musculus 0 day neonate kidney ...    75   7e-12
AK165475_1(AK165475|pid:none) Mus musculus adult male kidney cDN...    75   7e-12
AM920437_609(AM920437|pid:none) Penicillium chrysogenum Wisconsi...    75   7e-12
AP007155_926(AP007155|pid:none) Aspergillus oryzae RIB40 genomic...    74   1e-11
AE014296_2318(AE014296|pid:none) Drosophila melanogaster chromos...    73   2e-11
CU329671_1546(CU329671|pid:none) Schizosaccharomyces pombe chrom...    73   2e-11
AE017343_227(AE017343|pid:none) Cryptococcus neoformans var. neo...    72   4e-11
AM270077_11(AM270077|pid:none) Aspergillus niger contig An04c016...    72   5e-11
AC023673_20(AC023673|pid:none) Genomic sequence for Arabidopsis ...    67   2e-09
(Q54LN2) RecName: Full=Putative vacuolar protein sorting-associa...    65   4e-09
(Q9UIM0) RecName: Full=Vacuolar protein sorting-associated prote...    64   1e-08
BC172900_1(BC172900|pid:none) Synthetic construct Homo sapiens c...    64   1e-08
AJ608775_1(AJ608775|pid:none) Homo sapiens mRNA for VPS13D prote...    64   1e-08
AX406005_1(AX406005|pid:none) Sequence 420 from Patent WO0222660.      64   1e-08
AP004787_6(AP004787|pid:none) Oryza sativa Japonica Group genomi...    64   1e-08
AL606909_4(AL606909|pid:none) Mouse DNA sequence from clone RP23...    62   5e-08
AL606909_5(AL606909|pid:none) Mouse DNA sequence from clone RP23...    62   5e-08
AC087599_28(AC087599|pid:none) Oryza sativa chromosome 10 BAC OS...    61   1e-07
AM910994_77(AM910994|pid:none) Plasmodium knowlesi strain H chro...    59   3e-07
AB281689_1(AB281689|pid:none) Mus musculus Vps13a 5' variant I m...    57   1e-06
AK041811_1(AK041811|pid:none) Mus musculus 3 days neonate thymus...    56   3e-06
AP004562_9(AP004562|pid:none) Oryza sativa Japonica Group genomi...    56   3e-06
AM494957_142(AM494957|pid:none) Leishmania braziliensis chromoso...    54   2e-05
CR954203_491(CR954203|pid:none) Ostreococcus tauri strain OTTH05...    50   1e-04
CP000594_209(CP000594|pid:none) Ostreococcus lucimarinus CCE9901...    50   2e-04
AL590444_68(AL590444|pid:none) chromosome IV of strain GB-M1 of ...    50   2e-04
(Q55EI3) RecName: Full=Putative vacuolar protein sorting-associa...    49   5e-04
AM494946_104(AM494946|pid:none) Leishmania braziliensis chromoso...    47   0.001
AK000590_1(AK000590|pid:none) Homo sapiens cDNA FLJ20583 fis, cl...    46   0.004
BC094749_1(BC094749|pid:none) Homo sapiens vacuolar protein sort...    46   0.004
AY223815_1(AY223815|pid:none) Homo sapiens Cohen syndrome 1 prot...    46   0.004
AY223816_1(AY223816|pid:none) Homo sapiens Cohen syndrome 1 prot...    46   0.004
AX405976_1(AX405976|pid:none) Sequence 391 from Patent WO0222660...    46   0.004
AM502234_81(AM502234|pid:none) Leishmania infantum chromosome 16.      46   0.004
AY223817_1(AY223817|pid:none) Homo sapiens Cohen syndrome 1 prot...    46   0.004
AJ608772_1(AJ608772|pid:none) Homo sapiens mRNA for VPS13B (COH1...    46   0.004
CR940352_648(CR940352|pid:none) Theileria annulata strain Ankara...    43   0.030
AL844509_426(AL844509|pid:none) Plasmodium falciparum 3D7 chromo...    41   0.087
FN357313_32(FN357313|pid:none) Schistosoma mansoni genome sequen...    40   0.15
AM502227_105(AM502227|pid:none) Leishmania infantum chromosome 9.      40   0.25
AC155889_20(AC155889|pid:none) Medicago truncatula chromosome 2 ...    40   0.25
AM502226_122(AM502226|pid:none) Leishmania infantum chromosome 8...    39   0.43
CP000488_213(CP000488|pid:none) Candidatus Ruthia magnifica str....    35   8.1

>AF079445_1(AF079445|pid:none) Dictyostelium discoideum TipC (tipC)
            gene, complete cds.  &T17414(T17414)
          Length = 3848

 Score =  316 bits (810), Expect = 1e-84
 Identities = 169/242 (69%), Positives = 170/242 (70%)
 Frame = +3

Query: 618  GWLSSWWKPIVNTSVPIXXXXXXXXXXXXXXXXXKLKDIKLSKDDWNEIYDTIGYDENDD 797
            GWLSSWWKPIVNTSVPI                 KLKDIKLSKDDWNEIYDTIGYDENDD
Sbjct: 482  GWLSSWWKPIVNTSVPITAATTTTTATNTDSTITKLKDIKLSKDDWNEIYDTIGYDENDD 541

Query: 798  IINSNVASLQQPKQFGKDFSNIIKTVINFRLVQGGLKLKKKRRTIALLQLNDXXXXXXXX 977
            IINSNVASLQQPKQFGKDFSNIIKTVINFRLVQGGLKLKKKRRTIALLQLND
Sbjct: 542  IINSNVASLQQPKQFGKDFSNIIKTVINFRLVQGGLKLKKKRRTIALLQLNDISLSLKSK 601

Query: 978  XXXXFVFNGNLKGLELIDQSTFNTQFPKLISPLLKRNSSPIPTKIISQPPIFNXXXXXXX 1157
                FVFNGNLKGLELIDQSTFNTQFPKLISPLLKRNSS IPTKIISQPPIFN
Sbjct: 602  INSSFVFNGNLKGLELIDQSTFNTQFPKLISPLLKRNSSSIPTKIISQPPIFNITLESHS 661

Query: 1158 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIQSKPLTIVYYPKFISTVNDFFFKK 1337
                                               IQSKPLTIVYYPKFISTVNDFFFKK
Sbjct: 662  LSSTITSSTTTATTTQSTSTNSNNNNNIKVNYSLSIQSKPLTIVYYPKFISTVNDFFFKK 721

Query: 1338 EE 1343
            E+
Sbjct: 722  ED 723

 Score =  303 bits (777), Expect = 7e-81
 Identities = 157/166 (94%), Positives = 157/166 (94%)
 Frame = +3

Query: 87  MVSHIAASVLTKYLGDYVDDLNKDNIKLSFLSGEAVLQDLKIKKTVLQSFLPNVIVKQAI 266
           MVSHIAASV TKYLGDYVDDLNKDNIKLSFLSGEAVLQDLKIKKTVLQSFLPNVIVKQAI
Sbjct: 1   MVSHIAASVHTKYLGDYVDDLNKDNIKLSFLSGEAVLQDLKIKKTVLQSFLPNVIVKQAI 60

Query: 267 IKKLSLHVPWKDLKGKPAIIKIEGIYVLAETSVXFDEQYYKKKFQDEKQAKLHIQEVLRL 446
           IKKLSLHVPWKDLKGKPAIIKIEGIYVLAETSV FDEQYYKKKFQDEKQAKLHIQEVLRL
Sbjct: 61  IKKLSLHVPWKDLKGKPAIIKIEGIYVLAETSVEFDEQYYKKKFQDEKQAKLHIQEVLRL 120

Query: 447 NKQQLKNPHQSXXXXXXXSDESNTFGSKLLQTVVDNLQLYIDSVHI 584
           NKQQLKNPHQS       SDESNTFGSKLLQTVVDNLQLYIDSVHI
Sbjct: 121 NKQQLKNPHQSTTTTTTTSDESNTFGSKLLQTVVDNLQLYIDSVHI 166

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: 3236559
Number of Hits to DB: 1,416,440,881
Number of extensions: 25451256
Number of successful extensions: 55168
Number of sequences better than 10.0: 74
Number of HSP's gapped: 55113
Number of HSP's successfully gapped: 80
Length of query: 449
Length of database: 1,051,180,864
Length adjustment: 132
Effective length of query: 317
Effective length of database: 623,955,076
Effective search space: 197793759092
Effective search space used: 197793759092
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: 32 (16.9 bits)
PSORT 

 psg: 0.87  gvh: 0.42  alm: 0.41  top: 0.43  tms: 0.00  mit: 0.32  mip: 0.00
 nuc: 0.08  erl: 0.00  erm: 0.40  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 0.00  tyr: 0.00  leu: 0.00  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 44.0 %: cytoplasmic
	 28.0 %: nuclear
	  8.0 %: cytoskeletal
	  8.0 %: vacuolar
	  4.0 %: mitochondrial
	  4.0 %: endoplasmic reticulum
	  4.0 %: peroxisomal

>> prediction for Contig-U12509-1 is cyt
VS (DIR, S) 0
VH (FL, L) 1
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0