NBDC - アーカイブトップ - ヘルプ
データベースの説明 | データ項目の説明 | 利用許諾 | ヘルプ
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
Description of this DB | Description of data items | Download | License
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U05839-1
Contig ID Contig-U05839-1
Contig update 2001. 8.30
Contig sequence 
>Contig-U05839-1 (Contig-U05839-1Q) /CSM_Contig/Contig-U05839-1Q.Seq.d
TTTCCCATTTTTTTTTTATTTTTTTTTTTTTGAACAACACATAAACATAT
ATATACATATAAATTCATATAAAAATGAGTGATACAGAGTCATCAACACC
ATCACAGCCAATAGTTGTTGTAGAATATTGCAAAATTTGTTCTTTACCAA
CTGAATATTGCGAATATGGACCATCAGCAAAACAATGTTTAAAAGAGAAT
GGACCACATCCAAATAATAATAAAAATACAGCATCAGGTAAAGATTCATC
AAATACTACTGCTACTACTACTACTACAGATACAACAACAACAACAACTA
CATCAACAGAAAATACAGAAGAGAAATTAAAAGATTTAAAGATTGTTGAT
GATTCAAAAGAAGTTAGTCATGTTGATGCTGGTAAATCAGAATCAAAAGA
AGCTACTGGTGAAGAAAAAGAAAAAGAAAAAGTATCAAAAAAGAAAAAAG
AAGTTAAACCACAAATTATCATTGAAGTTAATCAAAGAAATAAGAGAAAA
CATGTTACAAAGATTACAGGTTTAGAATTATATGGTATAAAATTATCAGA
TGCAGCTAAAGTTATGGCAAAGAAATTTAGTTGTGGTTGTTCTGTTGTTA
AATCAATCTCAAATCCAAATTCTGAAGATATCGATATTCAAGGAGATTTT
GGTGAGGAACTTGTTGATTTAATTGAAGAGAAATATCCAACTGTACCATT
ATCTGAAATTTATTTCTTAGAAGATAAAAAGAAAGTTAAAGCAAGATAAA
ATCTTTAAAAAAAAACCATAATAAAAATTAATTTTCAAAAAAAAAAAAAA
AAAAAAAAAAAAAA
Gap no gap
Contig length 814
Chromosome number (1..6, M) 3
Chromosome length 6358359
Start point 2397545
End point 2396751
Strand (PLUS/MINUS) MINUS
Number of clones 2
Number of EST 2
Link to clone list U05839
List of clone(s) 

est1=SSM153E,1,815
est2=VSB762Z,447,806
Translated Amino Acid sequence 
shfffiffflnnt*tyiyi*IHIKMSDTESSTPSQPIVVVEYCKICSLPTEYCEYGPSAK
QCLKENGPHPNNNKNTASGKDSSNTTATTTTTDTTTTTTTSTENTEEKLKDLKIVDDSKE
VSHVDAGKSESKEATGEEKEKEKVSKKKKEVKPQIIIEVNQRNKRKHVTKITGLELYGIK
LSDAAKVMAKKFSCGCSVVKSISNPNSEDIDIQGDFGEELVDLIEEKYPTVPLSEIYFLE
DKKKVKAR*nl*kktiikinfqkkkkkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
fpifflffff*tthkhiytykfi*k*viqshqhhhsq*ll*niakfvlyqlnianmdhqq
nnv*krmdhiqiiikiqhqvkihqilllllllqiqqqqqlhqqkiqkrn*ki*rllmiqk
klvmlmlvnqnqkkllvkkkkkkkyqkrkkklnhklslklikeirenmlqrlqv*nymv*
nyqmqlklwqrnlvvvvlllnqsqiqilkisifkeilvrnlli*lkrniqlyhylkfis*
kikrklkqdkifkkkp**klifkkkkkkkkk


Frame B:
fpfffyffffeqhiniyihinsykne*yrvintitansccrilqnlfftn*ilriwtisk
tmfkrewttsk***kysir*rfikyycyyyyyrynnnnnyinrkyrreikrfkdc**fkr
s*sc*cw*irikrsyw*rkrkrksikkekrs*ttnyh*s*skk*ektcykdyrfriiwyk
iircs*sygkei*lwlfcc*inlkskf*ryrysrrfw*gtc*fn*reisnctii*nlflr
r*kes*skikslkknhnkn*fskkkkkkkkk


Frame C:
shfffiffflnnt*tyiyi*IHIKMSDTESSTPSQPIVVVEYCKICSLPTEYCEYGPSAK
QCLKENGPHPNNNKNTASGKDSSNTTATTTTTDTTTTTTTSTENTEEKLKDLKIVDDSKE
VSHVDAGKSESKEATGEEKEKEKVSKKKKEVKPQIIIEVNQRNKRKHVTKITGLELYGIK
LSDAAKVMAKKFSCGCSVVKSISNPNSEDIDIQGDFGEELVDLIEEKYPTVPLSEIYFLE
DKKKVKAR*nl*kktiikinfqkkkkkkkk
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U05839-1 (Contig-U05839-1Q)
/CSM_Contig/Contig-U05839-1Q.Seq.d
         (814 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U05839-1 (Contig-U05839-1Q) /CSM_Contig/Conti...   587  e-168
Contig-U11911-1 (Contig-U11911-1Q) /CSM_Contig/Conti...    38  0.014
Contig-U11421-1 (Contig-U11421-1Q) /CSM_Contig/Conti...    38  0.014
Contig-U01779-1 (Contig-U01779-1Q) /CSM_Contig/Conti...    38  0.014
Contig-U12115-1 (Contig-U12115-1Q) /CSM_Contig/Conti...    36  0.057
Contig-U11919-1 (Contig-U11919-1Q) /CSM_Contig/Conti...    36  0.057
Contig-U11820-1 (Contig-U11820-1Q) /CSM_Contig/Conti...    36  0.057
Contig-U10382-1 (Contig-U10382-1Q) /CSM_Contig/Conti...    36  0.057
Contig-U09674-1 (Contig-U09674-1Q) /CSM_Contig/Conti...    36  0.057
Contig-U09271-1 (Contig-U09271-1Q) /CSM_Contig/Conti...    36  0.057

>Contig-U05839-1 (Contig-U05839-1Q) /CSM_Contig/Contig-U05839-1Q.Seq.d
          Length = 814

 Score =  587 bits (296), Expect = e-168
 Identities = 296/296 (100%)
 Strand = Plus / Plus

                                                                       
Query: 450 gaagttaaaccacaaattatcattgaagttaatcaaagaaataagagaaaacatgttaca 509
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 450 gaagttaaaccacaaattatcattgaagttaatcaaagaaataagagaaaacatgttaca 509

                                                                       
Query: 510 aagattacaggtttagaattatatggtataaaattatcagatgcagctaaagttatggca 569
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 510 aagattacaggtttagaattatatggtataaaattatcagatgcagctaaagttatggca 569

                                                                       
Query: 570 aagaaatttagttgtggttgttctgttgttaaatcaatctcaaatccaaattctgaagat 629
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 570 aagaaatttagttgtggttgttctgttgttaaatcaatctcaaatccaaattctgaagat 629

                                                                       
Query: 630 atcgatattcaaggagattttggtgaggaacttgttgatttaattgaagagaaatatcca 689
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 630 atcgatattcaaggagattttggtgaggaacttgttgatttaattgaagagaaatatcca 689

                                                                   
Query: 690 actgtaccattatctgaaatttatttcttagaagataaaaagaaagttaaagcaag 745
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 690 actgtaccattatctgaaatttatttcttagaagataaaaagaaagttaaagcaag 745


 Score =  440 bits (222), Expect = e-123
 Identities = 222/222 (100%)
 Strand = Plus / Plus

                                                                       
Query: 32  gaacaacacataaacatatatatacatataaattcatataaaaatgagtgatacagagtc 91
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 32  gaacaacacataaacatatatatacatataaattcatataaaaatgagtgatacagagtc 91

                                                                       
Query: 92  atcaacaccatcacagccaatagttgttgtagaatattgcaaaatttgttctttaccaac 151
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 92  atcaacaccatcacagccaatagttgttgtagaatattgcaaaatttgttctttaccaac 151

                                                                       
Query: 152 tgaatattgcgaatatggaccatcagcaaaacaatgtttaaaagagaatggaccacatcc 211
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 152 tgaatattgcgaatatggaccatcagcaaaacaatgtttaaaagagaatggaccacatcc 211

                                                     
Query: 212 aaataataataaaaatacagcatcaggtaaagattcatcaaa 253
           ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 212 aaataataataaaaatacagcatcaggtaaagattcatcaaa 253


 Score =  202 bits (102), Expect = 4e-52
 Identities = 102/102 (100%)
 Strand = Plus / Plus

                                                                       
Query: 309 gaaaatacagaagagaaattaaaagatttaaagattgttgatgattcaaaagaagttagt 368
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 309 gaaaatacagaagagaaattaaaagatttaaagattgttgatgattcaaaagaagttagt 368

                                                     
Query: 369 catgttgatgctggtaaatcagaatcaaaagaagctactggt 410
           ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 369 catgttgatgctggtaaatcagaatcaaaagaagctactggt 410


>Contig-U11911-1 (Contig-U11911-1Q) /CSM_Contig/Contig-U11911-1Q.Seq.d
          Length = 850

 Score = 38.2 bits (19), Expect = 0.014
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                  
Query: 339 aagattgttgatgattcaaaaga 361
           |||||||| ||||||||||||||
Sbjct: 518 aagattgtggatgattcaaaaga 540


>Contig-U11421-1 (Contig-U11421-1Q) /CSM_Contig/Contig-U11421-1Q.Seq.d
          Length = 1479

 Score = 38.2 bits (19), Expect = 0.014
 Identities = 25/27 (92%)
 Strand = Plus / Plus

                                     
Query: 47 atatatatacatataaattcatataaa 73
          ||||||||||||| ||| |||||||||
Sbjct: 24 atatatatacataaaaaatcatataaa 50


  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: 23,302
Number of Sequences: 6905
Number of extensions: 23302
Number of successful extensions: 3403
Number of sequences better than 10.0: 561
length of query: 814
length of database: 5,674,871
effective HSP length: 16
effective length of query: 798
effective length of database: 5,564,391
effective search space: 4440384018
effective search space used: 4440384018
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. 6
Homology vs DNA 
Query= Contig-U05839-1 (Contig-U05839-1Q) /CSM_Contig/Contig-U05839-1Q.Seq.d
         (814 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

(AU038928) Dictyostelium discoideum slug cDNA, clone SSM153.      587   0.0    3
(AU262229) Dictyostelium discoideum vegetative cDNA clone:VS...   587   e-163  1
(AU074815) Dictyostelium discoideum slug cDNA, clone SSM153.      218   2e-52  1
(CR936358) Human DNA sequence *** SEQUENCING IN PROGRESS ***...    46   0.001  2
(BX004827) Human DNA sequence from clone RP13-391G2 on chrom...    46   0.002  2
(BC043642) Homo sapiens cDNA clone IMAGE:3910609.                  54   0.008  1
(AC007390) Homo sapiens BAC clone RP11-423P10 from 2, comple...    54   0.008  1
(AP010025) Lotus japonicus genomic DNA, chromosome 3, clone:...    54   0.008  1
(AC217427) Pan troglodytes chromosome 7 clone CH251-309N11, ...    54   0.008  1
(AC197403) Pan troglodytes chromosome 7 clone CH251-550C7, W...    54   0.008  1
(DA670093) Homo sapiens cDNA clone NETRP2000115, 5' end, mRN...    54   0.008  1
(AC004841) Homo sapiens PAC clone RP4-607J23 from 7q21.2-q31...    46   0.016  2
(AL589863) Human DNA sequence from clone RP11-310J24 on chro...    36   0.016  8
(CU633914) Zebrafish DNA sequence from clone CH1073-515O9 in...    40   0.023  2
(AC213086) Populus trichocarpa clone POP083-O02, complete se...    34   0.028  5
(AC004709) Plasmodium falciparum chromosome 12, *** SEQUENCI...    40   0.029  7
(AL844509) Plasmodium falciparum chromosome 13.                    42   0.030  7
(AC100778) Homo sapiens chromosome 18, clone RP11-110H1, com...    34   0.032  6
(AC055876) Homo sapiens chromosome 15, clone RP11-578F21, co...    52   0.033  1
(AC136776) Homo sapiens chromosome 15 clone RP11-303F22 map ...    52   0.033  1
(AC126508) Rattus norvegicus clone CH230-232P3, *** SEQUENCI...    52   0.033  1
(AC114433) Rattus norvegicus clone CH230-85P14, *** SEQUENCI...    52   0.033  1
(AC097578) Rattus norvegicus clone CH230-24E22, *** SEQUENCI...    52   0.033  1
(CU463225) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    52   0.033  1
(AG382425) Mus musculus molossinus DNA, clone:MSMg01-192O13....    52   0.033  1
(AX344569) Sequence 20 from Patent WO0200932.                      42   0.047  7
(AC025430) Homo sapiens chromosome 15 clone CTD-2329K10 map ...    42   0.051  5
(AL844506) Plasmodium falciparum chromosome  7.                    40   0.061  8
(DD010736) Diagnosis of known genetic Parameters within the ...    38   0.068  2
(L77117) Methanocaldococcus jannaschii DSM 2661, complete ge...    36   0.070  16
(AC011139) Homo sapiens chromosome 18, clone RP11-1I2, compl...    34   0.071  8
(AX344563) Sequence 14 from Patent WO0200932.                      38   0.078  2
(CR318611) Zebrafish DNA sequence from clone DKEY-199F5 in l...    34   0.081  2
(BX908794) Zebrafish DNA sequence from clone DKEY-194C16 in ...    34   0.084  2
(U82668) Homo sapiens chromosome X clone XX-1Bcos, XX-F20-co...    42   0.085  2
(AX600639) Sequence 14 from Patent EP1260228.                      42   0.087  2
(AX600633) Sequence 8 from Patent EP1260228.                       42   0.090  2
(AC090711) Homo sapiens chromosome 8 clone RP11-89H1 map 8q2...    50   0.099  5
(AC023456) Homo sapiens chromosome 15, clone RP11-162P24, co...    40   0.11   9
(AC129985) Homo sapiens chromosome 8 clone RP11-89H1 map 8, ...    50   0.11   4
(AC023200) Homo sapiens chromosome 8, clone RP11-48D4, compl...    50   0.11   5
(AC129981) Mus musculus chromosome 5, clone RP23-114I13, com...    50   0.13   1
(AY021166) Oryza sativa microsatellite MRG3491 containing (T...    50   0.13   1
(AP008214) Oryza sativa (japonica cultivar-group) genomic DN...    50   0.13   1
(AP004694) Oryza sativa Japonica Group genomic DNA, chromoso...    50   0.13   1
(EA687588) Sequence 66467 from patent US 7365185.                  50   0.13   1
(CR382399) Plasmodium falciparum chromosome 6, complete sequ...    50   0.13   1
(AC141273) Homo sapiens chromosome 16 clone RP11-143N13, com...    50   0.13   1
(AC151438) Carollia perspicillata clone 438K12, WORKING DRAF...    50   0.13   1
(AC151437) Carollia perspicillata clone 312L15, WORKING DRAF...    50   0.13   1
(AC141431) Homo sapiens chromosome 16 clone CTD-2540O11, WOR...    50   0.13   1
(AC140532) Homo sapiens chromosome 16 clone XXfos-801120A8, ...    50   0.13   1
(AC176285) Strongylocentrotus purpuratus clone R3-3057E14, W...    50   0.13   1
(AM641466) Entamoeba dispar GSS, clone dispar82f12.q1k.            50   0.13   1
(BM276362) PfESToaa81h12.y1 Plasmodium falciparum 3D7 gameto...    50   0.13   1
(EY905478) RR2D877TF RR2(MS) Raphanus raphanistrum subsp. ra...    50   0.13   1
(EX761091) RR2CP32JQ RR2(MS) Raphanus raphanistrum subsp. ra...    50   0.13   1
(EX757518) RR2CP32TF RR2(MS) Raphanus raphanistrum subsp. ra...    50   0.13   1
(EV538339) RR2B491TF RR2(MS) Raphanus raphanistrum subsp. ra...    50   0.13   1
(CF889061) amastc-1098 TcAM Trypanosoma cruzi cDNA clone 8C9...    40   0.16   2
(CF888028) amastc-65 TcAM Trypanosoma cruzi cDNA clone 10G8 ...    40   0.16   2
(AC221530) Bos taurus clone CH240-408E23, WORKING DRAFT SEQU...    42   0.16   4
(AC230546) Bos taurus clone CH240-505M17, WORKING DRAFT SEQU...    42   0.21   4
(AL034558) Plasmodium falciparum MAL3P2.                           34   0.22   6
(AC117072) Dictyostelium discoideum chromosome 2 map 3879572...    32   0.24   7
(AX345878) Sequence 949 from Patent WO0200928.                     42   0.26   3
(AC005507) Plasmodium falciparum chromosome 12 clone 3D7, **...    40   0.27   7
(AC011280) Homo sapiens clone RP11-13K8, WORKING DRAFT SEQUE...    44   0.27   3
(AC087641) Homo sapiens chromosome 15, clone RP11-368J22, co...    38   0.31   3
(AC193638) Pan troglodytes BAC clone CH251-705F16 from chrom...    40   0.32   6
(AC013394) Homo sapiens chromosome 15, clone RP11-437B10, co...    38   0.32   3
(AM633486) Entamoeba dispar GSS, clone dispar101f09.q1k.           34   0.32   3
(BQ125521) rc69d05.y1 Meloidogyne hapla egg SL1 TOPO v1 Melo...    34   0.39   2
(DU847563) 31666 Tomato HindIII BAC Library Solanum lycopers...    38   0.43   2
(AC098858) Homo sapiens BAC clone RP11-149A7 from 4, complet...    34   0.46   5
(AR584244) Sequence 1 from patent US 6797466.                      36   0.47   16
(AR271569) Sequence 1 from patent US 6503729.                      36   0.47   16
(AL049184) Plasmodium falciparum DNA *** SEQUENCING IN PROGR...    40   0.48   8
(AC018457) Homo sapiens 3 BAC RP11-198G24 (Roswell Park Canc...    42   0.49   5
(AC136943) Homo sapiens chromosome 16 clone RP11-168N15, WOR...    36   0.49   4
(AL359398) Human chromosome 14 DNA sequence BAC R-369C8 of l...    36   0.52   4
(BV105599) MARC 23621-23622:1027527042:1 RTS-1 Bos indicus x...    48   0.52   1
(AL683847) Mouse DNA sequence from clone RP23-109A3 on chrom...    48   0.52   1
(AC126041) Mus musculus BAC clone RP24-268A23 from chromosom...    48   0.52   1
(AC205916) Pongo abelii BAC clone CH276-68I15 from chromosom...    48   0.52   1
(DD010735) Diagnosis of known genetic Parameters within the ...    48   0.52   1
(AX344555) Sequence 6 from Patent WO0200932.                       48   0.52   1
(DQ157414) Pteropus hypomelanus clone Ph9 microsatellite seq...    48   0.52   1
(AE014820) Plasmodium falciparum 3D7 chromosome 14 section 5...    48   0.52   1
(AL391354) Human DNA sequence from clone RP11-418F17 on chro...    48   0.52   1
(AC157309) Bos taurus clone CH240-67D12, WORKING DRAFT SEQUE...    48   0.52   1
(AC149647) Bos taurus clone CH240-68K2, WORKING DRAFT SEQUEN...    48   0.52   1
(AC140987) Rattus norvegicus clone CH230-237F12, WORKING DRA...    48   0.52   1
(AC109985) Rattus norvegicus clone CH230-39P17, *** SEQUENCI...    48   0.52   1
(CU915375) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    48   0.52   1
(CU914146) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    48   0.52   1
(CU571320) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    48   0.52   1
(CU062591) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    48   0.52   1
(AC195084) Macaca mulatta clone CH250-487H22, WORKING DRAFT ...    48   0.52   1
(AC172236) Bos taurus clone CH240-160L10, WORKING DRAFT SEQU...    48   0.52   1

>(AU038928) Dictyostelium discoideum slug cDNA, clone SSM153.
          Length = 591

 Score =  587 bits (296), Expect(3) = 0.0
 Identities = 296/296 (100%)
 Strand = Plus / Plus


Query: 451 aagttaaaccacaaattatcattgaagttaatcaaagaaataagagaaaacatgttacaa 510
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 227 aagttaaaccacaaattatcattgaagttaatcaaagaaataagagaaaacatgttacaa 286


Query: 511 agattacaggtttagaattatatggtataaaattatcagatgcagctaaagttatggcaa 570
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 287 agattacaggtttagaattatatggtataaaattatcagatgcagctaaagttatggcaa 346


Query: 571 agaaatttagttgtggttgttctgttgttaaatcaatctcaaatccaaattctgaagata 630
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 347 agaaatttagttgtggttgttctgttgttaaatcaatctcaaatccaaattctgaagata 406


Query: 631 tcgatattcaaggagattttggtgaggaacttgttgatttaattgaagagaaatatccaa 690
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 407 tcgatattcaaggagattttggtgaggaacttgttgatttaattgaagagaaatatccaa 466


Query: 691 ctgtaccattatctgaaatttatttcttagaagataaaaagaaagttaaagcaaga 746
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 467 ctgtaccattatctgaaatttatttcttagaagataaaaagaaagttaaagcaaga 522

 Score =  210 bits (106), Expect(3) = 0.0
 Identities = 106/106 (100%)
 Strand = Plus / Plus


Query: 309 gaaaatacagaagagaaattaaaagatttaaagattgttgatgattcaaaagaagttagt 368
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 85  gaaaatacagaagagaaattaaaagatttaaagattgttgatgattcaaaagaagttagt 144


Query: 369 catgttgatgctggtaaatcagaatcaaaagaagctactggtgaag 414
           ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 145 catgttgatgctggtaaatcagaatcaaaagaagctactggtgaag 190

 Score = 58.0 bits (29), Expect(3) = 0.0
 Identities = 29/29 (100%)
 Strand = Plus / Plus


Query: 225 aatacagcatcaggtaaagattcatcaaa 253
           |||||||||||||||||||||||||||||
Sbjct: 1   aatacagcatcaggtaaagattcatcaaa 29

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 924,851,338
Number of extensions: 64849721
Number of successful extensions: 7200858
Number of sequences better than 10.0: 739
Length of query: 814
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 790
Effective length of database: 97,308,875,965
Effective search space: 76874012012350
Effective search space used: 76874012012350
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 6.20
Homology vs Protein 
Query= Contig-U05839-1 (Contig-U05839-1Q) /CSM_Contig/Contig-U05839-1Q.Seq.d
         (814 letters)

Database: nrp_A
           3,204,285 sequences; 1,040,966,779 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54WG0) RecName: Full=Density-regulated protein homolog;             314   2e-84
EF082452_1(EF082452|pid:none) Picea sitchensis clone WS02710_P13...   103   7e-21
EU955003_1(EU955003|pid:none) Zea mays clone 1501232 density-reg...    89   2e-16
BT034323_1(BT034323|pid:none) Zea mays full-length cDNA clone ZM...    89   2e-16
AP008207_559(AP008207|pid:none) Oryza sativa (japonica cultivar-...    89   2e-16
AC146750_1(AC146750|pid:none) Medicago truncatula clone mth2-16o...    87   5e-16
AK175446_1(AK175446|pid:none) Arabidopsis thaliana mRNA, complet...    86   2e-15
BT051575_1(BT051575|pid:none) Medicago truncatula clone MTYF5_F6...    73   1e-11
CU633899_472(CU633899|pid:none) Podospora anserina genomic DNA c...    70   6e-11
CR954211_191(CR954211|pid:none) Ostreococcus tauri strain OTTH05...    70   1e-10
(Q2H5Z7) RecName: Full=Translation machinery-associated protein ...    69   1e-10
CP001577_390(CP001577|pid:none) Micromonas sp. RCC299 chromosome...    67   5e-10
(Q2TVZ2) RecName: Full=Translation machinery-associated protein ...    67   9e-10
(Q6GLZ1) RecName: Full=Density-regulated protein;          Short...    66   2e-09
(Q6DFN7) RecName: Full=Density-regulated protein;          Short...    65   2e-09
(Q5KH97) RecName: Full=Translation machinery-associated protein ...    65   3e-09
(A2QHG9) RecName: Full=Translation machinery-associated protein ...    64   6e-09
BT082423_1(BT082423|pid:none) Anoplopoma fimbria clone afim-evh-...    64   6e-09
BC158753_1(BC158753|pid:none) Rattus norvegicus similar to densi...    63   1e-08
BT048421_1(BT048421|pid:none) Salmo salar clone ssal-eve-505-301...    63   1e-08
BT073558_1(BT073558|pid:none) Oncorhynchus mykiss clone omyk-evn...    63   1e-08
BT056813_1(BT056813|pid:none) Salmo salar clone ssal-evd-538-003...    63   1e-08
BT057182_1(BT057182|pid:none) Salmo salar clone ssal-evd-543-128...    63   1e-08
BT073501_1(BT073501|pid:none) Oncorhynchus mykiss clone omyk-evn...    63   1e-08
BT056842_1(BT056842|pid:none) Salmo salar clone ssal-evd-552-189...    63   1e-08
(O43583) RecName: Full=Density-regulated protein;          Short...    63   1e-08
(Q9CQJ6) RecName: Full=Density-regulated protein;          Short...    63   1e-08
(Q5RFP5) RecName: Full=Density-regulated protein;          Short...    63   1e-08
BT073859_1(BT073859|pid:none) Oncorhynchus mykiss clone omyk-evo...    63   1e-08
(Q2HJ47) RecName: Full=Density-regulated protein;          Short...    63   1e-08
AF038554_1(AF038554|pid:none) Homo sapiens density regulated pro...    63   1e-08
BT046934_1(BT046934|pid:none) Salmo salar clone ssal-eve-526-086...    63   1e-08
AM494962_36(AM494962|pid:none) Leishmania braziliensis chromosom...    63   1e-08
BT075836_1(BT075836|pid:none) Caligus rogercresseyi clone crog-e...    63   1e-08
(Q1E556) RecName: Full=Translation machinery-associated protein ...    60   6e-08
(Q6BH22) RecName: Full=Translation machinery-associated protein ...    60   6e-08
FN357555_3(FN357555|pid:none) Schistosoma mansoni genome sequenc...    60   8e-08
DQ630842_1(DQ630842|pid:none) Gryllus bimaculatus putative acces...    60   1e-07
DQ630843_1(DQ630843|pid:none) Gryllus rubens putative accessory ...    60   1e-07
AL844507_127(AL844507|pid:none) Plasmodium falciparum 3D7 chromo...    59   1e-07
BT080190_1(BT080190|pid:none) Caligus clemensi clone ccle-evs-50...    59   1e-07
(A6SIZ0) RecName: Full=Translation machinery-associated protein ...    59   1e-07
(A5E3R9) RecName: Full=Translation machinery-associated protein ...    58   3e-07
(A3LSY0) RecName: Full=Translation machinery-associated protein ...    58   4e-07
AM910996_245(AM910996|pid:none) Plasmodium knowlesi strain H chr...    56   2e-06
FN392321_398(FN392321|pid:none) Pichia pastoris GS115 chromosome...    55   2e-06
(A5DGV3) RecName: Full=Translation machinery-associated protein ...    55   3e-06
AE014298_2612(AE014298|pid:none) Drosophila melanogaster chromos...    54   5e-06
(A7TES6) RecName: Full=Translation machinery-associated protein ...    54   8e-06
(Q6CA08) RecName: Full=Translation machinery-associated protein ...    53   1e-05
(Q6CJ30) RecName: Full=Translation machinery-associated protein ...    51   5e-05
BT046416_1(BT046416|pid:none) Salmo salar clone ssal-eve-533-153...    47   7e-04
(Q2FTC8) RecName: Full=Protein translation factor SUI1 homolog; ...    45   0.002
FM992691_75(FM992691|pid:none) Candida dubliniensis CD36 chromos...    44   0.006
CU928171_566(CU928171|pid:none) Kluyveromyces thermotolerans str...    43   0.011
AK299463_1(AK299463|pid:none) Homo sapiens cDNA FLJ60140 complet...    42   0.031
AB169387_1(AB169387|pid:none) Macaca fascicularis testis cDNA, c...    42   0.031
(A7I9K6) RecName: Full=Protein translation factor SUI1 homolog; ...    40   0.090
CR940353_114(CR940353|pid:none) Theileria annulata strain Ankara...    40   0.12
CP001338_1897(CP001338|pid:none) Candidatus Methanosphaerula pal...    39   0.15
AE014297_4512(AE014297|pid:none) Drosophila melanogaster chromos...    37   0.58
AF186594_2(AF186594|pid:none) Drosophila melanogaster phosphogly...    37   0.58
AE003853_558(AE003853|pid:none) Vibrio cholerae O1 biovar eltor ...    37   0.76
AC016163_26(AC016163|pid:none) Arabidopsis thaliana chromosome 1...    37   0.76
AK227085_1(AK227085|pid:none) Arabidopsis thaliana mRNA for hypo...    37   0.76
CP000857_1966(CP000857|pid:none) Salmonella enterica subsp. ente...    37   0.99
(A2SQ91) RecName: Full=Protein translation factor SUI1 homolog; ...    37   0.99
BX842630_15(BX842630|pid:none) Neurospora crassa DNA linkage gro...    36   1.3
BX571867_53(BX571867|pid:none) Photorhabdus luminescens subsp. l...    36   1.3
EU810337_1(EU810337|pid:none) Gymnochlora stellata translation i...    36   1.7
(P0A2G7) RecName: Full=Uncharacterized protein yciH;  &(P0A2G8) ...    36   1.7
CP000021_574(CP000021|pid:none) Vibrio fischeri ES114 chromosome...    35   2.9
CP001133_579(CP001133|pid:none) Vibrio fischeri MJ11 chromosome ...    35   2.9
CP000034_1268(CP000034|pid:none) Shigella dysenteriae Sd197, com...    35   3.8
AE014073_1234(AE014073|pid:none) Shigella flexneri 2a str. 2457T...    35   3.8
CP000036_1650(CP000036|pid:none) Shigella boydii Sb227, complete...    35   3.8
AM270168_81(AM270168|pid:none) Aspergillus niger contig An08c013...    35   3.8
CU928164_1615(CU928164|pid:none) Escherichia coli IAI39 chromoso...    35   3.8
AE005174_2231(AE005174|pid:none) Escherichia coli O157:H7 EDL933...    35   3.8
BX649606_4(BX649606|pid:none) Aspergillus fumigatus BAC pilot pr...    35   3.8
EU971138_1(EU971138|pid:none) Zea mays clone 358250 ligatin mRNA...    35   3.8
AE005674_1286(AE005674|pid:none) Shigella flexneri 2a str. 301, ...    35   3.8
CP000970_1783(CP000970|pid:none) Escherichia coli SMS-3-5, compl...    35   3.8
CU651637_1256(CU651637|pid:none) Escherichia coli LF82 chromosom...    35   3.8
(P08245) RecName: Full=Uncharacterized protein yciH;  &AP009048_...    34   4.9
BX950851_1936(BX950851|pid:none) Erwinia carotovora subsp. atros...    34   4.9
CP000038_1733(CP000038|pid:none) Shigella sonnei Ss046, complete...    34   4.9
DQ211983_1(DQ211983|pid:none) Toxoplasma gondii eukaryotic trans...    34   4.9
FM180568_1474(FM180568|pid:none) Escherichia coli 0127:H6 E2348/...    34   4.9
AM920428_1308(AM920428|pid:none) Penicillium chrysogenum Wiscons...    34   6.4
CP000822_1324(CP000822|pid:none) Citrobacter koseri ATCC BAA-895...    34   6.4
(Q3IU96) RecName: Full=Protein translation factor SUI1 homolog; ...    33   8.4
CU928158_1601(CU928158|pid:none) Escherichia fergusonii ATCC 354...    33   8.4
CP000679_848(CP000679|pid:none) Caldicellulosiruptor saccharolyt...    33   8.4
CP000783_1525(CP000783|pid:none) Enterobacter sakazakii ATCC BAA...    33   8.4
CP000468_1247(CP000468|pid:none) Escherichia coli APEC O1, compl...    33   8.4
CP000243_1521(CP000243|pid:none) Escherichia coli UTI89, complet...    33   8.4
AM114193_225(AM114193|pid:none) Uncultured methanogenic archaeon...    33   8.4

>(Q54WG0) RecName: Full=Density-regulated protein homolog;
          Length = 224

 Score =  314 bits (804), Expect = 2e-84
 Identities = 164/217 (75%), Positives = 164/217 (75%)
 Frame = +3

Query: 75  MSDTESSTPSQPIVVVEYCKICSLPTEYCEYGPSAKQCLKENGPHPNNNKNTASGKXXXX 254
           MSDTESSTPSQPIVVVEYCKICSLPTEYCEYGPSAKQCLKENGPHPNNNKNTASGK
Sbjct: 1   MSDTESSTPSQPIVVVEYCKICSLPTEYCEYGPSAKQCLKENGPHPNNNKNTASGKDSSN 60

Query: 255 XXXXXXXXXXXXXXXXXXXXXXXKLKDLKIVDDSKEVSHVDAXXXXXXXXXXXXXXXXXX 434
                                  KLKDLKIVDDSKEVSHVDA
Sbjct: 61  TTATTTTTDTTTTTTTSTENTEEKLKDLKIVDDSKEVSHVDAGKSESKEATGEEKEKEKV 120

Query: 435 XXXXXXXXPQIIIEVNQRNKRKHVTKITGLELYGIKLSDAAKVMAKKFSCGCSVVKSISN 614
                   PQIIIEVNQRNKRKHVTKITGLELYGIKLSDAAKVMAKKFSCGCSVVKSISN
Sbjct: 121 SKKKKEVKPQIIIEVNQRNKRKHVTKITGLELYGIKLSDAAKVMAKKFSCGCSVVKSISN 180

Query: 615 PNSEDIDIQGDFGEELVDLIEEKYPTVPLSEIYFLED 725
           PNSEDIDIQGDFGEELVDLIEEKYPTVPLSEIYFLED
Sbjct: 181 PNSEDIDIQGDFGEELVDLIEEKYPTVPLSEIYFLED 217

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: 3204285
Number of Hits to DB: 769,147,909
Number of extensions: 11491119
Number of successful extensions: 27871
Number of sequences better than 10.0: 98
Number of HSP's gapped: 27801
Number of HSP's successfully gapped: 147
Length of query: 271
Length of database: 1,040,966,779
Length adjustment: 126
Effective length of query: 145
Effective length of database: 637,226,869
Effective search space: 92397896005
Effective search space used: 92397896005
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: 0.75  gvh: 0.29  alm: 0.45  top: 0.53  tms: 0.00  mit: 0.22  mip: 0.00
 nuc: 0.06  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 

	 52.0 %: nuclear
	 36.0 %: cytoplasmic
	  4.0 %: vacuolar
	  4.0 %: mitochondrial
	  4.0 %: peroxisomal

>> prediction for Contig-U05839-1 is nuc
VS (DIR, S) 1
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 1
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