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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U12043-1
Contig ID Contig-U12043-1
Contig update 2002.12.18
Contig sequence 
>Contig-U12043-1 (Contig-U12043-1Q) /CSM_Contig/Contig-U12043-1Q.Seq.d
GAAACCATTCGTTTAAAGAAATGAAATATTTATATATATTAAAAATTTTA
TTATTATTAATCAATTATATAAAATGTACAACACTACCAAATATTTATAA
TGTAATTGGACCATTCCCAATTGGAGAAAGAGAAGAAATTTATGATACAT
TAGAATCATATGGTGGAATTTTTAATATTCCAATTGGTGATAATACAACC
TATCCATCAGAATTAGGACATAATAGTGTAGTTGGTTGGAGTACATATAA
TTGGAGTACACCAGGAGCATTTCAAATGGAATGGTCATCAAGTATTAATT
GGTCTTTTTATGATATGCCATTTGGTTGGGAAATTTATTTATGGTATGCT
TATGTAATTGGTGATTTTACAGCAACTGAACCATCATCAAATTATATTAT
CAATTGTACTGATATTCGTACATTCTACATTCAATCTCAATCAAATCCAA
CCCAAATATATGAATTTTCCGGTGACTTTTTCGGATATGGTAATGGTCAA
CAAATCATTTATTTAAATCAAGGTGAACAATATAGAATTTATTTAAAGAT
GTTAAGTAGTACAAGAGTTTATGGTTCAGCATTTTCACAATTCACTTGTA
ATCTAATACCAATTAAAGAAACCCTTTCAATCATTGAAACTGAATCATTG
GTACCAGATATTGTTAGTGGTATATTAGCAAGTAAATATGCATCTATAAC
ATTATTAAATTCTGGTGAAATGGATTTAACAAATGGTATAACTATTGGAT
TACTTGAAAATAGTACAAGTGATCAATTATTTCAAATAAATCCAATCTTA
AATACATCTTTAACTAATATATTAGTTGGTCAAAGATTCTCAATACCATT
TGAAATTTCAATAAAAGATTCAACAATCTCAAATCAATTAGGTTGTCCTT
TAAATTTAGAAATTCAAGTTTCAATTAATACAAATGAAATTGGTGGTGGT
GGTGGTGATTCAATTAATAAATTATATACTACATCAATAGCATTTAATTG
TACAGAATTTACAAATGCATTTTTATATACATTCTTAGATTTTGATCAAA
CAGTTCAATATGCAATGTTATTATCACCAATTAATCAATGTGGTTTAAAT
GAAAATTTATGTAATGTTATGGTTGCTACACATGGATTTTTAGGGGT---
-------TTCAACCTATGGTCCAATTAGACAAATCTTTGAAAGTAGTATT
AAAATCGTCTATGGTACAGCTTCTCAAAATAATCAAACCATTGCTCAAGC
AAAACAAGCAGCAATCTATGTAAACAATTTTTGGAATAATTATGGTAGAG
GTTCTGTAACCATTTTCTCTGATCAACAATACATTGAGCAATTATCAAAT
CAAGATACATCATGTAGTGAAAATGTAATTTTAATTGGTAATTCAAATGA
AAATTTAATAACTAATAAATATATCATTAGATCAGATGTTTCTTTTAATC
AAGATAATTCTTTCTATATTGGAGGTGAAAATGGTTATTTATTCCAAGGT
GATGGTATTGGTATTGCTTTCCTTATGCCAAATAGATGTGGTGGTAATTT
AGTTTTAGTAATTGCTGGTACTGATTCACTTGGTTTAGATAATGCACTTC
ATTCAATTCCACAAAGAAGTGGTGATATTACTGGCCCTGATTTCATTGTA
ACAGGTCCTGATTTCCGTGGTAAAGGTTATGGTGGTATTATCTCTGCTGG
TTATTGGGATAATTATTATAAATTATCTGATTCAAATTTTTATATTTCTG
AAATTACAAATTAAAAAAAATTATCTAAATTATCCAAATTAAAAAAAAGT
AATATTGTAAAATCCTATCAAATTTTCTCAAAATTGTAATTGCAAAATAA
TAAAATAATTAATCACAATAATTCTTTTCAAAAAATAAAAAAAAAATAAA
AATAAATT
Gap gap included
Contig length 1898
Chromosome number (1..6, M) 6
Chromosome length 3595308
Start point 2694437
End point 2692539
Strand (PLUS/MINUS) MINUS
Number of clones 7
Number of EST 13
Link to clone list U12043
List of clone(s) 

est1=SHC124F,1,649
est2=VHN208F,1,656
est3=VHA631F,7,657
est4=VHG829F,11,623
est5=VHB554F,21,674
est6=VHG337F,545,1147
est7=VHA631Z,1148,1839
est8=VHN208Z,1159,1824
est9=SHC124Z,1223,1900
est10=VHB554Z,1235,1899
est11=VHJ531Z,1254,1853
est12=VHG337Z,1263,1839
est13=VHG829Z,1376,1898
Translated Amino Acid sequence 
NHSFKEMKYLYILKILLLLINYIKCTTLPNIYNVIGPFPIGEREEIYDTLESYGGIFNIP
IGDNTTYPSELGHNSVVGWSTYNWSTPGAFQMEWSSSINWSFYDMPFGWEIYLWYAYVIG
DFTATEPSSNYIINCTDIRTFYIQSQSNPTQIYEFSGDFFGYGNGQQIIYLNQGEQYRIY
LKMLSSTRVYGSAFSQFTCNLIPIKETLSIIETESLVPDIVSGILASKYASITLLNSGEM
DLTNGITIGLLENSTSDQLFQINPILNTSLTNILVGQRFSIPFEISIKDSTISNQLGCPL
NLEIQVSINTNEIGGGGGDSINKLYTTSIAFNCTEFTNAFLYTFLDFDQTVQYAMLLSPI
NQCGLNENLCNVMVATHGFLG---

---STYGPIRQIFESSIKIVYGTASQNNQTIAQAKQAAIYVNNFWNNYGRGSVTIFSDQQ
YIEQLSNQDTSCSENVILIGNSNENLITNKYIIRSDVSFNQDNSFYIGGENGYLFQGDGI
GIAFLMPNRCGGNLVLVIAGTDSLGLDNALHSIPQRSGDITGPDFIVTGPDFRGKGYGGI
ISAGYWDNYYKLSDSNFYISEITN*kklsklsklkksnivksyqifskl*lqnnkiinhn
nsfqkikkk*k*i
Translated Amino Acid sequence (All Frames) 
Frame A:
etirlkk*niyiy*kfyyy*sii*nvqhyqifim*ldhsqlekekkfmih*nhmveflif
qlviiqpihqn*diiv*lvgvhiigvhqehfkwnghqvliglfmichlvgkfiygmlm*l
vilqqlnhhqiilsivlifvhstfnlnqiqpkymnfpvtfsdmvmvnksfi*ikvnnief
i*rc*vvqefmvqhfhnslvi*yqlkkpfqslklnhwyqillvvy*qvnmhl*hy*ilvk
wi*qmv*lldylkivqvinyfk*iqs*ihl*liy*lvkdsqyhlkfq*kiqqsqin*vvl
*i*kfkfqliqmklvvvvviqlinyilhq*hlivqnlqmhfyihs*ilikqfnmqcyyhq
linvv*mkiyvmlwllhmdf*g---

---fnlwsn*tnl*k*y*nrlwysfsk*snhcssktssnlckqfle*lw*rfcnhfl*st
ih*aiiksryim**kcnfnw*fk*kfnn**iyh*ircff*sr*fflywr*kwlfipr*wy
wycfpyak*mww*fsfsncwy*ftwfr*ctsfnstkkw*yywp*fhcnrs*fpw*rlwwy
ylcwllg*ll*ii*fkflyf*nyklkkii*iiqikkk*yckilsnflkiviak**nn*sq
*ffsknkkkikin

Frame B:
kpfv*rneifiyiknfiiinqlykmynttkyl*cnwtipnwrkrrnl*yiriiwwnf*ys
nw**ynlsirirt**cswleyi*leytrsisngmviky*lvfl*yaiwlgnlfmvclcnw
*fysn*tiiklyyqly*ysyilhsisiksnpni*ifr*lfriw*wstnhlfksr*ti*nl
fkdvk*ykslwfsiftihl*sntn*rnpfnh*n*iigtryc*wyisk*iciyniikfw*n
gfnkwynywit*k*yk*siisnksnlkyifn*yiswskilnti*nfnkrfnnlksirlsf
kfrnssfn*yk*nwwwww*fn**iiyyinsi*lyriykcifiyilrf*snssicnviitn
*smwfk*kfm*cygcytwifrg---

---STYGPIRQIFESSIKIVYGTASQNNQTIAQAKQAAIYVNNFWNNYGRGSVTIFSDQQ
YIEQLSNQDTSCSENVILIGNSNENLITNKYIIRSDVSFNQDNSFYIGGENGYLFQGDGI
GIAFLMPNRCGGNLVLVIAGTDSLGLDNALHSIPQRSGDITGPDFIVTGPDFRGKGYGGI
ISAGYWDNYYKLSDSNFYISEITN*kklsklsklkksnivksyqifskl*lqnnkiinhn
nsfqkikkk*k*i

Frame C:
NHSFKEMKYLYILKILLLLINYIKCTTLPNIYNVIGPFPIGEREEIYDTLESYGGIFNIP
IGDNTTYPSELGHNSVVGWSTYNWSTPGAFQMEWSSSINWSFYDMPFGWEIYLWYAYVIG
DFTATEPSSNYIINCTDIRTFYIQSQSNPTQIYEFSGDFFGYGNGQQIIYLNQGEQYRIY
LKMLSSTRVYGSAFSQFTCNLIPIKETLSIIETESLVPDIVSGILASKYASITLLNSGEM
DLTNGITIGLLENSTSDQLFQINPILNTSLTNILVGQRFSIPFEISIKDSTISNQLGCPL
NLEIQVSINTNEIGGGGGDSINKLYTTSIAFNCTEFTNAFLYTFLDFDQTVQYAMLLSPI
NQCGLNENLCNVMVATHGFLG---

---qpmvqldkslkvvlkssmvqllkiikpllkqnkqqsm*tifgiimvevl*pfslinn
tlsnyqikihhvvkm*f*lviqmki**linisldqmfllikiilsilevkmviyskvmvl
vllslcqidvvvi*f**llvlihlv*imhfiqfhkevvillalisl*qvlisvvkvmvvl
sllvigiiiinyliqififlklqikknylnypn*kkvil*npikfsqncnckiik*liti
ilfkk*kknknk
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U12043-1 (Contig-U12043-1Q)
/CSM_Contig/Contig-U12043-1Q.Seq.d
         (1908 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U12043-1 (Contig-U12043-1Q) /CSM_Contig/Conti...  1715  0.0
Contig-U11293-1 (Contig-U11293-1Q) /CSM_Contig/Conti...    66  2e-10
Contig-U13916-1 (Contig-U13916-1Q) /CSM_Contig/Conti...    40  0.009
Contig-U09487-1 (Contig-U09487-1Q) /CSM_Contig/Conti...    40  0.009
Contig-U14511-1 (Contig-U14511-1Q) /CSM_Contig/Conti...    38  0.034
Contig-U12792-1 (Contig-U12792-1Q) /CSM_Contig/Conti...    38  0.034
Contig-U11842-1 (Contig-U11842-1Q) /CSM_Contig/Conti...    38  0.034
Contig-U01657-1 (Contig-U01657-1Q) /CSM_Contig/Conti...    38  0.034
Contig-U13981-1 (Contig-U13981-1Q) /CSM_Contig/Conti...    36  0.14
Contig-U13979-1 (Contig-U13979-1Q) /CSM_Contig/Conti...    36  0.14

>Contig-U12043-1 (Contig-U12043-1Q) /CSM_Contig/Contig-U12043-1Q.Seq.d
          Length = 1908

 Score = 1715 bits (865), Expect = 0.0
 Identities = 865/865 (100%)
 Strand = Plus / Plus

                                                                       
Query: 76  gtacaacactaccaaatatttataatgtaattggaccattcccaattggagaaagagaag 135
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 76  gtacaacactaccaaatatttataatgtaattggaccattcccaattggagaaagagaag 135

                                                                       
Query: 136 aaatttatgatacattagaatcatatggtggaatttttaatattccaattggtgataata 195
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 136 aaatttatgatacattagaatcatatggtggaatttttaatattccaattggtgataata 195

                                                                       
Query: 196 caacctatccatcagaattaggacataatagtgtagttggttggagtacatataattgga 255
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 196 caacctatccatcagaattaggacataatagtgtagttggttggagtacatataattgga 255

                                                                       
Query: 256 gtacaccaggagcatttcaaatggaatggtcatcaagtattaattggtctttttatgata 315
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 256 gtacaccaggagcatttcaaatggaatggtcatcaagtattaattggtctttttatgata 315

                                                                       
Query: 316 tgccatttggttgggaaatttatttatggtatgcttatgtaattggtgattttacagcaa 375
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 316 tgccatttggttgggaaatttatttatggtatgcttatgtaattggtgattttacagcaa 375

                                                                       
Query: 376 ctgaaccatcatcaaattatattatcaattgtactgatattcgtacattctacattcaat 435
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 376 ctgaaccatcatcaaattatattatcaattgtactgatattcgtacattctacattcaat 435

                                                                       
Query: 436 ctcaatcaaatccaacccaaatatatgaattttccggtgactttttcggatatggtaatg 495
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 436 ctcaatcaaatccaacccaaatatatgaattttccggtgactttttcggatatggtaatg 495

                                                                       
Query: 496 gtcaacaaatcatttatttaaatcaaggtgaacaatatagaatttatttaaagatgttaa 555
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 496 gtcaacaaatcatttatttaaatcaaggtgaacaatatagaatttatttaaagatgttaa 555

                                                                       
Query: 556 gtagtacaagagtttatggttcagcattttcacaattcacttgtaatctaataccaatta 615
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 556 gtagtacaagagtttatggttcagcattttcacaattcacttgtaatctaataccaatta 615

                                                                       
Query: 616 aagaaaccctttcaatcattgaaactgaatcattggtaccagatattgttagtggtatat 675
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 616 aagaaaccctttcaatcattgaaactgaatcattggtaccagatattgttagtggtatat 675

                                                                       
Query: 676 tagcaagtaaatatgcatctataacattattaaattctggtgaaatggatttaacaaatg 735
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 676 tagcaagtaaatatgcatctataacattattaaattctggtgaaatggatttaacaaatg 735

                                                                       
Query: 736 gtataactattggattacttgaaaatagtacaagtgatcaattatttcaaataaatccaa 795
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 736 gtataactattggattacttgaaaatagtacaagtgatcaattatttcaaataaatccaa 795

                                                                       
Query: 796 tcttaaatacatctttaactaatatattagttggtcaaagattctcaataccatttgaaa 855
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 796 tcttaaatacatctttaactaatatattagttggtcaaagattctcaataccatttgaaa 855

                                                                       
Query: 856 tttcaataaaagattcaacaatctcaaatcaattaggttgtcctttaaatttagaaattc 915
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 856 tttcaataaaagattcaacaatctcaaatcaattaggttgtcctttaaatttagaaattc 915

                                    
Query: 916 aagtttcaattaatacaaatgaaat 940
           |||||||||||||||||||||||||
Sbjct: 916 aagtttcaattaatacaaatgaaat 940


 Score = 1526 bits (770), Expect = 0.0
 Identities = 800/800 (100%)
 Strand = Plus / Plus

                                                                        
Query: 958  attcaattaataaattatatactacatcaatagcatttaattgtacagaatttacaaatg 1017
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 958  attcaattaataaattatatactacatcaatagcatttaattgtacagaatttacaaatg 1017

                                                                        
Query: 1018 catttttatatacattcttagattttgatcaaacagttcaatatgcaatgttattatcac 1077
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1018 catttttatatacattcttagattttgatcaaacagttcaatatgcaatgttattatcac 1077

                                                                        
Query: 1078 caattaatcaatgtggtttaaatgaaaatttatgtaatgttatggttgctacacatggat 1137
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1078 caattaatcaatgtggtttaaatgaaaatttatgtaatgttatggttgctacacatggat 1137

                                                                        
Query: 1138 ttttaggggtnnnnnnnnnnttcaacctatggtccaattagacaaatctttgaaagtagt 1197
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1138 ttttaggggtnnnnnnnnnnttcaacctatggtccaattagacaaatctttgaaagtagt 1197

                                                                        
Query: 1198 attaaaatcgtctatggtacagcttctcaaaataatcaaaccattgctcaagcaaaacaa 1257
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1198 attaaaatcgtctatggtacagcttctcaaaataatcaaaccattgctcaagcaaaacaa 1257

                                                                        
Query: 1258 gcagcaatctatgtaaacaatttttggaataattatggtagaggttctgtaaccattttc 1317
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1258 gcagcaatctatgtaaacaatttttggaataattatggtagaggttctgtaaccattttc 1317

                                                                        
Query: 1318 tctgatcaacaatacattgagcaattatcaaatcaagatacatcatgtagtgaaaatgta 1377
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1318 tctgatcaacaatacattgagcaattatcaaatcaagatacatcatgtagtgaaaatgta 1377

                                                                        
Query: 1378 attttaattggtaattcaaatgaaaatttaataactaataaatatatcattagatcagat 1437
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1378 attttaattggtaattcaaatgaaaatttaataactaataaatatatcattagatcagat 1437

                                                                        
Query: 1438 gtttcttttaatcaagataattctttctatattggaggtgaaaatggttatttattccaa 1497
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1438 gtttcttttaatcaagataattctttctatattggaggtgaaaatggttatttattccaa 1497

                                                                        
Query: 1498 ggtgatggtattggtattgctttccttatgccaaatagatgtggtggtaatttagtttta 1557
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1498 ggtgatggtattggtattgctttccttatgccaaatagatgtggtggtaatttagtttta 1557

                                                                        
Query: 1558 gtaattgctggtactgattcacttggtttagataatgcacttcattcaattccacaaaga 1617
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1558 gtaattgctggtactgattcacttggtttagataatgcacttcattcaattccacaaaga 1617

                                                                        
Query: 1618 agtggtgatattactggccctgatttcattgtaacaggtcctgatttccgtggtaaaggt 1677
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1618 agtggtgatattactggccctgatttcattgtaacaggtcctgatttccgtggtaaaggt 1677

                                                                        
Query: 1678 tatggtggtattatctctgctggttattgggataattattataaattatctgattcaaat 1737
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1678 tatggtggtattatctctgctggttattgggataattattataaattatctgattcaaat 1737

                                
Query: 1738 ttttatatttctgaaattac 1757
            ||||||||||||||||||||
Sbjct: 1738 ttttatatttctgaaattac 1757


 Score =  161 bits (81), Expect = 3e-39
 Identities = 81/81 (100%)
 Strand = Plus / Plus

                                                                        
Query: 1799 gtaatattgtaaaatcctatcaaattttctcaaaattgtaattgcaaaataataaaataa 1858
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1799 gtaatattgtaaaatcctatcaaattttctcaaaattgtaattgcaaaataataaaataa 1858

                                 
Query: 1859 ttaatcacaataattcttttc 1879
            |||||||||||||||||||||
Sbjct: 1859 ttaatcacaataattcttttc 1879


 Score = 46.1 bits (23), Expect = 1e-04
 Identities = 23/23 (100%)
 Strand = Plus / Plus

                                 
Query: 1  gaaaccattcgtttaaagaaatg 23
          |||||||||||||||||||||||
Sbjct: 1  gaaaccattcgtttaaagaaatg 23


 Score = 32.2 bits (16), Expect = 2.1
 Identities = 16/16 (100%)
 Strand = Plus / Minus

                           
Query: 812 aactaatatattagtt 827
           ||||||||||||||||
Sbjct: 827 aactaatatattagtt 812


>Contig-U11293-1 (Contig-U11293-1Q) /CSM_Contig/Contig-U11293-1Q.Seq.d
          Length = 1367

 Score = 65.9 bits (33), Expect = 2e-10
 Identities = 96/117 (82%)
 Strand = Plus / Plus

                                                                       
Query: 98  taatgtaattggaccattcccaattggagaaagagaagaaatttatgatacattagaatc 157
           |||||| ||||||||||| ||||||||||||||||| |||   |  ||||  ||| || |
Sbjct: 114 taatgttattggaccatttccaattggagaaagagaggaaggattagatagtttaaaagc 173

                                                                    
Query: 158 atatggtggaatttttaatattccaattggtgataatacaacctatccatcagaatt 214
           ||||||||| |||||| | || |||||||| ||| ||||||  ||||||||| ||||
Sbjct: 174 atatggtggtatttttgaaataccaattggagatgatacaatgtatccatcaaaatt 230


 Score = 36.2 bits (18), Expect = 0.14
 Identities = 24/26 (92%)
 Strand = Plus / Plus

                                      
Query: 1589 ataatgcacttcattcaattccacaa 1614
            |||||||| | |||||||||||||||
Sbjct: 1158 ataatgcattacattcaattccacaa 1183


 Score = 36.2 bits (18), Expect = 0.14
 Identities = 24/26 (92%)
 Strand = Plus / Plus

                                      
Query: 1167 tggtccaattagacaaatctttgaaa 1192
            |||||||||| | |||||||||||||
Sbjct: 760  tggtccaattcgtcaaatctttgaaa 785


>Contig-U13916-1 (Contig-U13916-1Q) /CSM_Contig/Contig-U13916-1Q.Seq.d
          Length = 1314

 Score = 40.1 bits (20), Expect = 0.009
 Identities = 20/20 (100%)
 Strand = Plus / Plus

                               
Query: 326 ttgggaaatttatttatggt 345
           ||||||||||||||||||||
Sbjct: 831 ttgggaaatttatttatggt 850


  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: 34,951
Number of Sequences: 6905
Number of extensions: 34951
Number of successful extensions: 3960
Number of sequences better than 10.0: 477
length of query: 1908
length of database: 5,674,871
effective HSP length: 16
effective length of query: 1892
effective length of database: 5,564,391
effective search space: 10527827772
effective search space used: 10527827772
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 2008.11.28
Homology vs DNA 
Query= Contig-U12043-1 (Contig-U12043-1Q) /CSM_Contig/Contig-U12043-1Q.Seq.d
         (1908 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

(BJ418971) Dictyostelium discoideum cDNA clone:ddv34k13, 5' ...  1187   0.0    1
(BJ436847) Dictyostelium discoideum cDNA clone:ddv32m08, 3' ...  1176   0.0    1
(BJ444700) Dictyostelium discoideum cDNA clone:ddv57o02, 3' ...  1154   0.0    1
(BJ418338) Dictyostelium discoideum cDNA clone:ddv32m08, 5' ...  1154   0.0    1
(BJ426113) Dictyostelium discoideum cDNA clone:ddv57o02, 5' ...  1144   0.0    1
(BJ392585) Dictyostelium discoideum cDNA clone:dds28o05, 5' ...  1138   0.0    1
(BJ421953) Dictyostelium discoideum cDNA clone:ddv44j08, 5' ...  1086   0.0    1
(BJ421644) Dictyostelium discoideum cDNA clone:ddv43j09, 5' ...   777   0.0    2
(BJ404335) Dictyostelium discoideum cDNA clone:dds28o05, 3' ...   989   0.0    1
(BJ437555) Dictyostelium discoideum cDNA clone:ddv34k13, 3' ...   971   0.0    1
(BJ442605) Dictyostelium discoideum cDNA clone:ddv50m07, 3' ...   965   0.0    1
(BJ440334) Dictyostelium discoideum cDNA clone:ddv43j09, 3' ...   940   0.0    1
(BJ440663) Dictyostelium discoideum cDNA clone:ddv44j08, 3' ...   724   0.0    1
(BJ334644) Dictyostelium discoideum cDNA clone:dda47d09, 5' ...    56   6e-13  2
(AF063866) Melanoplus sanguinipes entomopoxvirus, complete g...    32   0.002  19
(BJ392580) Dictyostelium discoideum cDNA clone:dds28n05, 5' ...    56   0.005  1
(CP000123) Mycoplasma capricolum subsp. capricolum ATCC 2734...    40   0.038  20
(BZ074782) lkg99f05.b1 B.oleracea002 Brassica oleracea genom...    38   0.11   3
(AL049183) Plasmodium falciparum DNA *** SEQUENCING IN PROGR...    38   0.17   10
(AF165818) Guillardia theta nucleomorph chromosome 1, comple...    38   0.18   11
(BX538352) Cryptosporidium parvum chromosome 6, complete seq...    46   0.23   10
(AM285302) Spiroplasma citri GII3-3X chromosome, contig Cont...    30   0.30   15
(CP000016) Candidatus Blochmannia pennsylvanicus str. BPEN, ...    34   0.30   23
(AC213015) Populus trichocarpa clone POP034-G19, complete se...    32   0.33   12
(CP000382) Clostridium novyi NT, complete genome.                  36   0.38   23
(AF250284) Amsacta moorei entomopoxvirus, complete genome.         34   0.45   17
(AC116986) Dictyostelium discoideum chromosome 2 map 2234041...    32   0.50   15
(AC117075) Dictyostelium discoideum chromosome 2 map 5201047...    32   0.59   16
(AE013218) Buchnera aphidicola str. Sg (Schizaphis graminum)...    34   0.71   17
(AP003534) Homo sapiens genomic DNA, chromosome 8q23, clone:...    42   1.2    7
(AP003549) Homo sapiens genomic DNA, chromosome 8q23, clone:...    42   1.2    7
(AC145539) Didelphis virginiana clone LB3-256N22, WORKING DR...    48   1.2    1
(AC170030) Mustela putorius furo clone CH237-461E18, WORKING...    48   1.2    1
(DU032497) 14047 Tomato HindIII BAC Library Solanum lycopers...    48   1.2    1
(AP008971) Finegoldia magna ATCC 29328 DNA, complete genome.       48   1.2    1
(AE000666) Methanothermobacter thermautotrophicus str. Delta...    48   1.2    1
(AE014850) Plasmodium falciparum 3D7 chromosome 12, section ...    32   1.3    16
(AX392735) Sequence 25 from Patent WO0212526.                      32   1.4    8
(AR707082) Sequence 25 from patent US 6933145.                     32   1.4    8
(AC087283) Homo sapiens chromosome 15, clone RP11-597G23, co...    42   1.5    6
(BJ439648) Dictyostelium discoideum cDNA clone:ddv41l04, 3' ...    36   1.5    2
(EX537695) AIAC-aaa28a07.b1 Ancylostoma_caninum_EST_Male_pSM...    42   1.5    2
(BJ407871) Dictyostelium discoideum cDNA clone:dds43m24, 3' ...    36   1.6    2
(BJ350459) Dictyostelium discoideum cDNA clone:dda39n19, 3' ...    36   1.6    2
(BJ352601) Dictyostelium discoideum cDNA clone:dda47d09, 3' ...    36   1.8    2
(BJ404330) Dictyostelium discoideum cDNA clone:dds28n05, 3' ...    36   1.8    2
(BJ405278) Dictyostelium discoideum cDNA clone:dds31m02, 3' ...    36   1.9    2
(BJ406433) Dictyostelium discoideum cDNA clone:dds35a11, 3' ...    36   1.9    2
(EJ834239) 1093017608097 Global-Ocean-Sampling_GS-30-02-01-1...    38   2.3    2
(AC225435) Monodelphis domestica clone VMRC18-203J21, WORKIN...    36   2.5    2
(AC116984) Dictyostelium discoideum chromosome 2 map 2567470...    34   2.6    19
(CU651596) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    44   3.0    2
(AC005505) Plasmodium falciparum chromosome 12 clone 3D7, **...    32   3.0    14
(EJ644616) 1093012243604 Global-Ocean-Sampling_GS-29-01-01-1...    36   3.2    2
(EJ645195) 1093012270196 Global-Ocean-Sampling_GS-29-01-01-1...    36   3.3    2
(AC141764) Apis mellifera clone CH224-60D8, WORKING DRAFT SE...    38   3.4    7
(BM514753) ky07h06.y1 Parastrongyloides trichosuri PA SL1 TO...    38   3.5    3
(AC068618) Homo sapiens chromosome 15 clone RP11-597G23, WOR...    42   4.2    3
(BM514909) kx93d07.y1 Parastrongyloides trichosuri PA SL1 TO...    38   4.2    3
(AZ606293) 1M0428D08F Mouse 10kb plasmid UUGC1M library Mus ...    38   4.2    2
(BX293980) Mycoplasma mycoides subsp. mycoides SC str. PG1, ...    36   4.3    18
(CR382398) Plasmodium falciparum chromosome 6, complete sequ...    32   4.6    18
(AP008981) Orientia tsutsugamushi str. Ikeda DNA, complete g...    38   4.6    20
(BC141895) Mus musculus cDNA clone IMAGE:40044393.                 46   4.9    1
(AC154834) Mus musculus BAC clone RP24-573L8 from chromosome...    46   4.9    1
(AC145556) Mus musculus BAC clone RP23-308E7 from chromosome...    46   4.9    1
(AC186986) Canis familiaris chromosome 6, clone XX-302M17, c...    46   4.9    1
(AP003781) Homo sapiens genomic DNA, chromosome 11 clone:RP1...    46   4.9    1
(AP000929) Homo sapiens genomic DNA, chromosome 11 clone:RP1...    46   4.9    1
(AP000751) Homo sapiens genomic DNA, chromosome 11q, clone:R...    46   4.9    1
(AC011901) Homo sapiens BAC clone RP11-547P13 from 2, comple...    46   4.9    1
(AC152586) Bos taurus clone CH240-9D21, WORKING DRAFT SEQUEN...    46   4.9    1
(AC149985) Strongylocentrotus purpuratus clone R3-32A3, WORK...    46   4.9    1
(AC149982) Strongylocentrotus purpuratus clone R3-32A4, WORK...    46   4.9    1
(AC110632) Rattus norvegicus clone CH230-266I22, *** SEQUENC...    46   4.9    1
(AC079509) Mus musculus clone RP23-275N4, WORKING DRAFT SEQU...    46   4.9    1
(CU407237) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   4.9    1
(CU062532) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   4.9    1
(AP001265) Homo sapiens genomic DNA, chromosome 11q24 clone:...    46   4.9    1
(AC224388) Bos taurus clone CH240-486H23, WORKING DRAFT SEQU...    46   4.9    1
(AC206270) Zea mays chromosome 4 clone CH201-172M9; ZMMBBc01...    46   4.9    1
(AC181814) Strongylocentrotus purpuratus clone R3-1023P17, W...    46   4.9    1
(AC179422) Strongylocentrotus purpuratus clone R3-62K1, WORK...    46   4.9    1
(AC177655) Strongylocentrotus purpuratus clone R3-1018A08, W...    46   4.9    1
(AC018702) Homo sapiens chromosome 11 clone RP11-8N17, WORKI...    46   4.9    1
(AC013596) Homo sapiens clone RP11-8N17, WORKING DRAFT SEQUE...    46   4.9    1
(AQ840713) nbxb0068J09r CUGI Rice BAC Library Oryza sativa J...    46   4.9    1
(ER301207) 1092343683581 Global-Ocean-Sampling_GS-34-01-01-1...    46   4.9    1
(EK386464) 1095469485258 Global-Ocean-Sampling_GS-31-01-01-1...    46   4.9    1
(EI708117) IGBR08P13TF BAC library from the recurrent gliobl...    46   4.9    1
(ED811585) ML__Ba0008F17r ML__Ba Mimulus lewisii genomic, ge...    46   4.9    1
(DE474433) Bombyx mori genomic DNA, Fosmid clone:GBMFno75_p0...    46   4.9    1
(AG698243) Macaca fuscata fuscata DNA, clone: MSB2-135M02_R,...    46   4.9    1
(AG616025) Macaca fuscata fuscata DNA, clone: MSB2-006P12_F,...    46   4.9    1
(BZ962550) PUDFB23TD ZM_0.6_1.0_KB Zea mays genomic clone ZM...    46   4.9    1
(DV921474) LB02925.CR_B05 GC_BGC-29 Bos taurus cDNA clone IM...    46   4.9    1
(CP000671) Haemophilus influenzae PittEE, complete genome.         46   4.9    1
(BX255949) Zebrafish DNA sequence from clone DKEY-76F5 in li...    34   5.1    10
(AJ422212) Lucilia sericata  complete mitochondrial genome.        32   5.1    6
(AL844509) Plasmodium falciparum chromosome 13.                    36   5.2    20

>(BJ418971) Dictyostelium discoideum cDNA clone:ddv34k13, 5' end,
           single read.
          Length = 654

 Score = 1187 bits (599), Expect = 0.0
 Identities = 599/599 (100%)
 Strand = Plus / Plus


Query: 76  gtacaacactaccaaatatttataatgtaattggaccattcccaattggagaaagagaag 135
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 56  gtacaacactaccaaatatttataatgtaattggaccattcccaattggagaaagagaag 115


Query: 136 aaatttatgatacattagaatcatatggtggaatttttaatattccaattggtgataata 195
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 116 aaatttatgatacattagaatcatatggtggaatttttaatattccaattggtgataata 175


Query: 196 caacctatccatcagaattaggacataatagtgtagttggttggagtacatataattgga 255
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 176 caacctatccatcagaattaggacataatagtgtagttggttggagtacatataattgga 235


Query: 256 gtacaccaggagcatttcaaatggaatggtcatcaagtattaattggtctttttatgata 315
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 236 gtacaccaggagcatttcaaatggaatggtcatcaagtattaattggtctttttatgata 295


Query: 316 tgccatttggttgggaaatttatttatggtatgcttatgtaattggtgattttacagcaa 375
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 296 tgccatttggttgggaaatttatttatggtatgcttatgtaattggtgattttacagcaa 355


Query: 376 ctgaaccatcatcaaattatattatcaattgtactgatattcgtacattctacattcaat 435
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 356 ctgaaccatcatcaaattatattatcaattgtactgatattcgtacattctacattcaat 415


Query: 436 ctcaatcaaatccaacccaaatatatgaattttccggtgactttttcggatatggtaatg 495
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 416 ctcaatcaaatccaacccaaatatatgaattttccggtgactttttcggatatggtaatg 475


Query: 496 gtcaacaaatcatttatttaaatcaaggtgaacaatatagaatttatttaaagatgttaa 555
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 476 gtcaacaaatcatttatttaaatcaaggtgaacaatatagaatttatttaaagatgttaa 535


Query: 556 gtagtacaagagtttatggttcagcattttcacaattcacttgtaatctaataccaatta 615
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 536 gtagtacaagagtttatggttcagcattttcacaattcacttgtaatctaataccaatta 595


Query: 616 aagaaaccctttcaatcattgaaactgaatcattggtaccagatattgttagtggtata 674
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 596 aagaaaccctttcaatcattgaaactgaatcattggtaccagatattgttagtggtata 654

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 2,168,621,276
Number of extensions: 133927746
Number of successful extensions: 11080172
Number of sequences better than 10.0: 120
Length of query: 1908
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 1884
Effective length of database: 97,308,875,965
Effective search space: 183329922318060
Effective search space used: 183329922318060
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7. 1
Homology vs Protein 
Query= Contig-U12043-1 (Contig-U12043-1Q) /CSM_Contig/Contig-U12043-1Q.Seq.d
         (1908 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AE017341_214(AE017341|pid:none) Cryptococcus neoformans var. neo...    59   5e-07
CP000912_190(CP000912|pid:none) Brucella suis ATCC 23445 chromos...    40   0.39
FM954973_773(FM954973|pid:none) Vibrio splendidus LGP32 chromoso...    39   0.67
AE017341_213(AE017341|pid:none) Cryptococcus neoformans var. neo...    38   1.5
(Q8YB57) RecName: Full=Isoleucyl-tRNA synthetase;          EC=6....    38   1.5
(P0C123) RecName: Full=Isoleucyl-tRNA synthetase;          EC=6....    38   1.5
(Q8FX81) RecName: Full=Isoleucyl-tRNA synthetase;          EC=6....    38   1.5
CP000099_3501(CP000099|pid:none) Methanosarcina barkeri str. Fus...    38   1.5
CP000360_94(CP000360|pid:none) Acidobacteria bacterium Ellin345,...    37   2.0
AP008231_788(AP008231|pid:none) Synechococcus elongatus PCC 6301...    37   2.5
CP000500_53(CP000500|pid:none) Pichia stipitis CBS 6054 chromoso...    33   4.3
(P61243) RecName: Full=Protein ycf2;  &AP005672_45(AP005672|pid:...    35   7.4
AL844506_72(AL844506|pid:none) Plasmodium falciparum 3D7 chromos...    35   7.4
CP000767_667(CP000767|pid:none) Campylobacter curvus 525.92, com...    35   7.4
EU088373_1(EU088373|pid:none) Helianthus annuus cycloidea-like 3...    35   9.7
CP000446_2116(CP000446|pid:none) Shewanella sp. MR-4, complete g...    35   9.7

>AE017341_214(AE017341|pid:none) Cryptococcus neoformans var.
            neoformans JEC21 chromosome 1, complete sequence.
          Length = 423

 Score = 59.3 bits (142), Expect = 5e-07
 Identities = 50/196 (25%), Positives = 88/196 (44%), Gaps = 6/196 (3%)
 Frame = +1

Query: 1165 YGPIRQIFES--SIKIVY---GTASQNNQTIAQAKQAAIYVNNFWNNYGRGSVTIFSDQQ 1329
            YGP+ +I  S  S  ++    G A  ++ +IA+     +YV      Y +    I +DQ+
Sbjct: 230  YGPMIRILSSPASFHLIIPSSGEAQPHHLSIAKRIAHDLYV------YHKADCDIIADQE 283

Query: 1330 YIEQLSNQDTSCSENVILIGNSNENLITNKYIIRSDVSFNQDNSFYIGGENGYLFQGDGI 1509
             +E+++        ++I+IG    N  T        +         +      +    G
Sbjct: 284  GLERVAKGKIGPG-SIIVIGRPENNRYTEWMAAEGKIPIQFPTKGVMAISKDKVVSDRGA 342

Query: 1510 GIAFLMPNRC-GGNLVLVIAGTDSLGLDNALHSIPQRSGDITGPDFIVTGPDFRGKGYGG 1686
            G   L P+    G+L L+IAG D LGL+ A    P R+G +  PD+ +  P  R +G  G
Sbjct: 343  GFIALHPHPTHSGSLSLLIAGNDELGLELATRLFPTRTG-VPLPDWAMICPRSRWQGANG 401

Query: 1687 IISAGYWDNYYKLSDS 1734
            +I AG+W   ++ +++
Sbjct: 402  LIGAGFWGGEWEYNEA 417

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: 2,763,510,329
Number of extensions: 56379148
Number of successful extensions: 177288
Number of sequences better than 10.0: 16
Number of HSP's gapped: 177122
Number of HSP's successfully gapped: 17
Length of query: 636
Length of database: 1,051,180,864
Length adjustment: 135
Effective length of query: 501
Effective length of database: 614,245,399
Effective search space: 307736944899
Effective search space used: 307736944899
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: 0.80  gvh: 0.59  alm: 0.33  top: 0.53  tms: 0.00  mit: 0.22  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.00  pox: 0.00  px2: 0.00  vac: 0.33  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 %: nuclear
	 36.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: vacuolar

>> prediction for Contig-U12043-1 is nuc
VS (DIR, S) 0
VH (FL, L) 6
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 1
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0