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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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-U12034-1
Contig ID Contig-U12034-1
Contig update 2002.12.18
Contig sequence 
>Contig-U12034-1 (Contig-U12034-1Q) /CSM_Contig/Contig-U12034-1Q.Seq.d
CTGTTGGCCTACTGGNACAACAACAACACCACCACAACCACCAATTACAG
NAAGNAGNATTAGATTTTTAGCATTATTTAAAAATAAATCATATAGAAGT
GTAAGATGGGTAACAGAAAAAGTTATTGAAAAAGAAAAAGAGAGTCCAAC
ATTAATAAAGTTATTGAAAACCGTTAGAAATACACCACCACCAGCAATAA
AGAATGAATCAGAAGCCAATCCATTCAATTATTTCTCACCAGATTGCACA
GTGATTGAAAAGATTTTAGCAAAGAAAGAGACTAAAGCAGGTAAATCCAA
AAAGATGACAACATTTTATCTCTGCAAATGGAAAACACTACCCCATGAAA
AGAGTACATGGGAGGATGAAAATATTTTAATCACCGAAGAGGATCAAGCA
GCAATTAAACAATTCAATGCCAATCAGTTACTTTTGGATCAACCAAAGAA
ATATGTTAATCGTCCAACTAAATTACCCATTTTCAACAATGAATTGGTAC
CAAAATTCCAAGATAACCTCTCATTAAAGGAGTTCCAAGTTGAGGGTTTC
CTATGGCTTAGTNNNNNNNNN----------NNNNNNNNNNTTCAATCAT
TAAAGATTTTTATGATTCTTTATTGGATGATACTTCAACTTATAATTTCC
ATAAAATGGGTTTCAATACTGAAAATAAAATCATTCTCAATGATGCATCC
AAATTAAATGCCGCTGCCGCTTCAGCCTCTTCCTCTTCTGATAAACCAAC
TCCACCTCCAATTAAAAGATTCCACGTTAAGAGAACCTTTAATGCAAATG
GTTTATTCTGTGCTCAACAATTAACAATTAGATGGAATATTGAAGAACCA
AAATCTAATGATAAAGAAACTCAAATAAAAGTTGAAGAAAAGGAAAAATC
AACTGAATCAAAATCATCATCTAATGACGAAAAAGATGTTTGTGAAAAAG
TTGAAAAAGGTGAAAAAGAAATTTCAAGTGATAAGGTTGATGAAAATAAA
GAAAAAGTTGAAAATAATGAAAAGGTTAATGTTGATGAAAAATCCAAAGA
TAATGAAAAATCTAATGATAGTGAAAAATCAAAAGATAATGAAAAATCTA
AAGATGACGAAAAATCTAAAGATGATGAAAAATCAAAAGATGACGAAAAA
TCACAAGATGATGAGAAATCTAAAGAGANAAAAATCTAAGGAGANAAAAA
TCAAAATTAGAAGAGAATCAAGGGATAAAAAGGAAA
Gap gap included
Contig length 1226
Chromosome number (1..6, M) 6
Chromosome length 3595308
Start point 2300149
End point 2301347
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 2
Link to clone list U12034
List of clone(s) 

est1=SHB205F,1,562
est2=SHB205Z,563,1208
Translated Amino Acid sequence 
CWPTGTTTTPPQPPITXXXIRFLALFKNKSYRSVRWVTEKVIEKEKESPTLIKLLKTVRN
TPPPAIKNESEANPFNYFSPDCTVIEKILAKKETKAGKSKKMTTFYLCKWKTLPHEKSTW
EDENILITEEDQAAIKQFNANQLLLDQPKKYVNRPTKLPIFNNELVPKFQDNLSLKEFQV
EGFLWLSXXX---

---XXXSIIKDFYDSLLDDTSTYNFHKMGFNTENKIILNDASKLNAAAASASSSSDKPTP
PPIKRFHVKRTFNANGLFCAQQLTIRWNIEEPKSNDKETQIKVEEKEKSTESKSSSNDEK
DVCEKVEKGEKEISSDKVDENKEKVENNEKVNVDEKSKDNEKSNDSEKSKDNEKSKDDEK
SKDDEKSKDDEKSQDDEKSKEXKI*gxknqn*krikg*kg
Translated Amino Acid sequence (All Frames) 
Frame A:
llaywxnnntttttnyxkxx*ifsii*k*ii*kckmgnrksy*krkresninkvienr*k
ytttsnke*irsqsiqlfltrlhsd*kdfskerd*sr*iqkddnilslqmenttp*keym
gg*kyfnhrrgsssn*tiqcqsvtfgstkeic*ssn*ithfqq*igtkipr*plikgvps
*gfpma*xxx---

---xxxxqslkifmilywmilqliisikwvsilkiksfsmmhpn*mplplqplpllinql
hlqlkdstlreplmqmvysvlnn*qldgilknqnlmikklk*klkkrknqlnqnhhlmtk
kmfvkklkkvkkkfqvirlmkikkklkimkrlmlmknpkimknlmivknqkimknlkmtk
nlkmmknqkmtknhkmmrnlkrxkskexkikirresrdkke

Frame B:
CWPTGTTTTPPQPPITXXXIRFLALFKNKSYRSVRWVTEKVIEKEKESPTLIKLLKTVRN
TPPPAIKNESEANPFNYFSPDCTVIEKILAKKETKAGKSKKMTTFYLCKWKTLPHEKSTW
EDENILITEEDQAAIKQFNANQLLLDQPKKYVNRPTKLPIFNNELVPKFQDNLSLKEFQV
EGFLWLSXXX---

---xxxfnh*rfl*ffig*yfnl*fp*ngfqy*k*nhsq*ciqikcrcrfslflf**tns
tsn*kipr*enl*ckwfilcstinn*mey*rtki***rnsnks*rkgkin*ikiii**rk
rcl*ks*kr*krnfk**g**k*rks*k**kg*c**kiqr**ki****kikr**ki*r*rk
i*r**kikr*rkitr**ei*rxknlrrxkskleenqgikrk

Frame C:
vgllxqqqhhhnhqlqxxxldf*hylkinhiev*dg*qkkllkkkkrvqh**sy*kplei
hhhqq*rmnqkpihsiishqiaq*lkrf*qrkrlkqvnpkr*qhfisangkhypmkrvhg
rmkif*spkrikqqlnnsmpisyfwinqrnmlivqlnypfstmnwyqnskitsh*rsskl
rvsyglvxx---

---XXXSIIKDFYDSLLDDTSTYNFHKMGFNTENKIILNDASKLNAAAASASSSSDKPTP
PPIKRFHVKRTFNANGLFCAQQLTIRWNIEEPKSNDKETQIKVEEKEKSTESKSSSNDEK
DVCEKVEKGEKEISSDKVDENKEKVENNEKVNVDEKSKDNEKSNDSEKSKDNEKSKDDEK
SKDDEKSKDDEKSQDDEKSKEXKI*gxknqn*krikg*kg
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U12034-1 (Contig-U12034-1Q)
/CSM_Contig/Contig-U12034-1Q.Seq.d
         (1236 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U12034-1 (Contig-U12034-1Q) /CSM_Contig/Conti...  1090  0.0
Contig-U13284-1 (Contig-U13284-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U13078-1 (Contig-U13078-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U12177-1 (Contig-U12177-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U11441-1 (Contig-U11441-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U09610-1 (Contig-U09610-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U12197-1 (Contig-U12197-1Q) /CSM_Contig/Conti...    40  0.006
Contig-U11569-1 (Contig-U11569-1Q) /CSM_Contig/Conti...    40  0.006
Contig-U11113-1 (Contig-U11113-1Q) /CSM_Contig/Conti...    40  0.006
Contig-U10018-1 (Contig-U10018-1Q) /CSM_Contig/Conti...    40  0.006

>Contig-U12034-1 (Contig-U12034-1Q) /CSM_Contig/Contig-U12034-1Q.Seq.d
          Length = 1236

 Score = 1090 bits (550), Expect = 0.0
 Identities = 562/562 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   ctgttggcctactggnacaacaacaacaccaccacaaccaccaattacagnaagnagnat 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ctgttggcctactggnacaacaacaacaccaccacaaccaccaattacagnaagnagnat 60

                                                                       
Query: 61  tagatttttagcattatttaaaaataaatcatatagaagtgtaagatgggtaacagaaaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  tagatttttagcattatttaaaaataaatcatatagaagtgtaagatgggtaacagaaaa 120

                                                                       
Query: 121 agttattgaaaaagaaaaagagagtccaacattaataaagttattgaaaaccgttagaaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 agttattgaaaaagaaaaagagagtccaacattaataaagttattgaaaaccgttagaaa 180

                                                                       
Query: 181 tacaccaccaccagcaataaagaatgaatcagaagccaatccattcaattatttctcacc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 tacaccaccaccagcaataaagaatgaatcagaagccaatccattcaattatttctcacc 240

                                                                       
Query: 241 agattgcacagtgattgaaaagattttagcaaagaaagagactaaagcaggtaaatccaa 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 agattgcacagtgattgaaaagattttagcaaagaaagagactaaagcaggtaaatccaa 300

                                                                       
Query: 301 aaagatgacaacattttatctctgcaaatggaaaacactaccccatgaaaagagtacatg 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 aaagatgacaacattttatctctgcaaatggaaaacactaccccatgaaaagagtacatg 360

                                                                       
Query: 361 ggaggatgaaaatattttaatcaccgaagaggatcaagcagcaattaaacaattcaatgc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 ggaggatgaaaatattttaatcaccgaagaggatcaagcagcaattaaacaattcaatgc 420

                                                                       
Query: 421 caatcagttacttttggatcaaccaaagaaatatgttaatcgtccaactaaattacccat 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 caatcagttacttttggatcaaccaaagaaatatgttaatcgtccaactaaattacccat 480

                                                                       
Query: 481 tttcaacaatgaattggtaccaaaattccaagataacctctcattaaaggagttccaagt 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 tttcaacaatgaattggtaccaaaattccaagataacctctcattaaaggagttccaagt 540

                                 
Query: 541 tgagggtttcctatggcttagt 562
           ||||||||||||||||||||||
Sbjct: 541 tgagggtttcctatggcttagt 562


 Score =  668 bits (337), Expect = 0.0
 Identities = 337/337 (100%)
 Strand = Plus / Plus

                                                                       
Query: 592 ttcaatcattaaagatttttatgattctttattggatgatacttcaacttataatttcca 651
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 592 ttcaatcattaaagatttttatgattctttattggatgatacttcaacttataatttcca 651

                                                                       
Query: 652 taaaatgggtttcaatactgaaaataaaatcattctcaatgatgcatccaaattaaatgc 711
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 652 taaaatgggtttcaatactgaaaataaaatcattctcaatgatgcatccaaattaaatgc 711

                                                                       
Query: 712 cgctgccgcttcagcctcttcctcttctgataaaccaactccacctccaattaaaagatt 771
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 712 cgctgccgcttcagcctcttcctcttctgataaaccaactccacctccaattaaaagatt 771

                                                                       
Query: 772 ccacgttaagagaacctttaatgcaaatggtttattctgtgctcaacaattaacaattag 831
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 772 ccacgttaagagaacctttaatgcaaatggtttattctgtgctcaacaattaacaattag 831

                                                                       
Query: 832 atggaatattgaagaaccaaaatctaatgataaagaaactcaaataaaagttgaagaaaa 891
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 832 atggaatattgaagaaccaaaatctaatgataaagaaactcaaataaaagttgaagaaaa 891

                                                
Query: 892 ggaaaaatcaactgaatcaaaatcatcatctaatgac 928
           |||||||||||||||||||||||||||||||||||||
Sbjct: 892 ggaaaaatcaactgaatcaaaatcatcatctaatgac 928


 Score = 97.6 bits (49), Expect = 3e-20
 Identities = 52/52 (100%)
 Strand = Plus / Plus

                                                                
Query: 1185 tctaaggaganaaaaatcaaaattagaagagaatcaagggataaaaaggaaa 1236
            ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1185 tctaaggaganaaaaatcaaaattagaagagaatcaagggataaaaaggaaa 1236


>Contig-U13284-1 (Contig-U13284-1Q) /CSM_Contig/Contig-U13284-1Q.Seq.d
          Length = 561

 Score = 42.1 bits (21), Expect = 0.001
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 17  acaacaacaacaccaccacaa 37
           |||||||||||||||||||||
Sbjct: 118 acaacaacaacaccaccacaa 138


 Score = 30.2 bits (15), Expect = 5.4
 Identities = 15/15 (100%)
 Strand = Plus / Plus

                          
Query: 127 tgaaaaagaaaaaga 141
           |||||||||||||||
Sbjct: 169 tgaaaaagaaaaaga 183


 Score = 30.2 bits (15), Expect = 5.4
 Identities = 18/19 (94%)
 Strand = Plus / Plus

                              
Query: 17  acaacaacaacaccaccac 35
           |||||||||||| ||||||
Sbjct: 115 acaacaacaacaacaccac 133


>Contig-U13078-1 (Contig-U13078-1Q) /CSM_Contig/Contig-U13078-1Q.Seq.d
          Length = 517

 Score = 42.1 bits (21), Expect = 0.001
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 592 ttcaatcattaaagattttta 612
           |||||||||||||||||||||
Sbjct: 473 ttcaatcattaaagattttta 493


  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: 24,974
Number of Sequences: 6905
Number of extensions: 24974
Number of successful extensions: 3041
Number of sequences better than 10.0: 712
length of query: 1236
length of database: 5,674,871
effective HSP length: 16
effective length of query: 1220
effective length of database: 5,564,391
effective search space: 6788557020
effective search space used: 6788557020
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-U12034-1 (Contig-U12034-1Q) /CSM_Contig/Contig-U12034-1Q.Seq.d
         (1236 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

(BJ392027) Dictyostelium discoideum cDNA clone:dds26i02, 5' ...  1090   0.0    1
(BJ403732) Dictyostelium discoideum cDNA clone:dds26i02, 3' ...   509   e-140  1
(EB043361) OpilSEQ6807 Ophiostoma piliferum pBluescript (Eco...    54   0.013  1
(EB342974) CNSN01-F-030461-501 Normalized CNS library (juven...    48   0.040  2
(BJ326660) Dictyostelium discoideum cDNA clone:dda17p07, 5' ...    42   0.19   2
(AG347158) Mus musculus molossinus DNA, clone:MSMg01-142J08....    50   0.20   1
(CI255992) Oryza sativa Japonica Group cDNA, clone: 044-M076...    50   0.20   1
(CI209162) Oryza sativa Japonica Group cDNA, clone: 038-M035...    50   0.20   1
(CI040622) Oryza sativa Japonica Group cDNA, clone: 009-M196...    50   0.20   1
(CI036896) Oryza sativa Japonica Group cDNA, clone: 009-M152...    50   0.20   1
(CI025760) Oryza sativa Japonica Group cDNA, clone: 009-M021...    50   0.20   1
(BJ416321) Dictyostelium discoideum cDNA clone:ddv25d21, 5' ...    50   0.20   1
(BJ396625) Dictyostelium discoideum cDNA clone:dds43i07, 5' ...    50   0.20   1
(BJ389152) Dictyostelium discoideum cDNA clone:dds17n18, 5' ...    50   0.20   1
(BJ364231) Dictyostelium discoideum cDNA clone:ddc30m23, 5' ...    50   0.20   1
(BJ363473) Dictyostelium discoideum cDNA clone:ddc26i19, 5' ...    50   0.20   1
(BJ336937) Dictyostelium discoideum cDNA clone:dda55o14, 5' ...    50   0.20   1
(BJ325552) Dictyostelium discoideum cDNA clone:dda1j07, 5' e...    50   0.20   1
(BB999365) Citrus tamurana cDNA, clone: 2_1_A05, ovule suppr...    50   0.20   1
(FE790649) CCAG17516.g1 CCAG Petrolisthes cinctipes heart, g...    50   0.20   1
(CJ463148) Macaca fascicularis mRNA, clone: QnpA-11247, 5' e...    32   0.44   4
(DE226725) Trifolium pratense DNA, clone:RCG19226.                 46   0.46   2
(CK325023) CNSN01-F-030461-501 Aplysia californica cDNA ampl...    44   0.58   2
(BJ369964) Dictyostelium discoideum cDNA clone:ddc52l14, 5' ...    36   0.58   2
(BJ395389) Dictyostelium discoideum cDNA clone:dds38o13, 5' ...    42   0.60   2
(CR847996) Zebrafish DNA sequence from clone CH211-275E5 in ...    48   0.80   1
(BV049945) S212P60379FG2.T0 CZECHII/Ei Mus musculus STS geno...    48   0.80   1
(AL672020) Mouse DNA sequence from clone RP23-185A3 on chrom...    48   0.80   1
(AL596108) Mouse DNA sequence from clone RP23-326K2 on chrom...    48   0.80   1
(AC158922) Mus musculus chromosome 15, clone RP23-182C12, co...    48   0.80   1
(AC144799) Mus musculus chromosome 18 clone RP24-299J7, comp...    48   0.80   1
(AC121821) Mus musculus chromosome 18 clone RP23-461O23, com...    48   0.80   1
(AC113493) Mus musculus chromosome 15, clone RP23-359H23, co...    48   0.80   1
(AY044846) Magnaporthe grisea putative vacuolar ATPase MVP1 ...    48   0.80   1
(AJ508881) Puccinia triticina microsatellite DNA, clone RB8.       48   0.80   1
(AF170544) Magnaporthe grisea vacuolar-ATPase (VATP) mRNA, c...    48   0.80   1
(AC099781) Homo sapiens chromosome 3 clone RP11-791E14, comp...    48   0.80   1
(AC128068) Rattus norvegicus clone CH230-99A16, *** SEQUENCI...    48   0.80   1
(AC126499) Rattus norvegicus clone CH230-202L20, WORKING DRA...    48   0.80   1
(AC119574) Rattus norvegicus clone CH230-276D19, *** SEQUENC...    48   0.80   1
(AC106997) Rattus norvegicus clone CH230-81H7, *** SEQUENCIN...    48   0.80   1
(AC105432) Magnaporthe grisea chromosome 7 clone 11H04, *** ...    48   0.80   1
(AC095214) Rattus norvegicus clone CH230-10B9, *** SEQUENCIN...    48   0.80   1
(AC094762) Rattus norvegicus clone CH230-5K22, WORKING DRAFT...    48   0.80   1
(AC087877) Mus musculus clone RP23-9L21, *** SEQUENCING IN P...    48   0.80   1
(AC023349) Homo sapiens chromosome UNK clone RP11-555G21, WO...    48   0.80   1
(AC022656) Homo sapiens clone RP11-28P11, WORKING DRAFT SEQU...    48   0.80   1
(EJ199066) 1092344281352 Global-Ocean-Sampling_GS-27-01-01-1...    48   0.80   1
(ED234951) AUAC-aas65f05.g1 Ascaris suum whole genome shotgu...    48   0.80   1
(EH243136) JGI_ACAC1681.fwd ACAC Phakopsora pachyrhizi TW72-...    48   0.80   1
(EB291388) CNSN01-F-022621-501 Normalized CNS library (juven...    48   0.80   1
(CK687583) ZF101-P00044-DEPE-F_A09 GISZF001_ra Danio rerio c...    48   0.80   1
(CD034863) mgmt017xN21f.b Mated culture Magnaporthe grisea c...    48   0.80   1
(BM871569) mgns014xH04f.b Magnaporthe grisea NS Uni-Zap XR L...    48   0.80   1
(BM869631) mgns007xG04f.b Magnaporthe grisea NS Uni-Zap XR L...    48   0.80   1
(BM869034) mgns002xJ11f.b Magnaporthe grisea NS Uni-Zap XR L...    48   0.80   1
(BM868749) mgns001xL23f.b Magnaporthe grisea NS Uni-Zap XR L...    48   0.80   1
(BM862922) mgcm004xL03f.b Magnaporthe grisea CM Uni-Zap XR L...    48   0.80   1
(BG809714) mgct001xg12f Magnaporthe grisea Appressorium Stag...    48   0.80   1
(BG809508) mghe0041xK17f Magnaporthe grisea Appressorium Sta...    48   0.80   1
(BG809469) mghe0038xE06f Magnaporthe grisea Appressorium Sta...    48   0.80   1
(BG809466) mghe0038xB04f Magnaporthe grisea Appressorium Sta...    48   0.80   1
(BG809264) mghe0018xE05f Magnaporthe grisea Appressorium Sta...    48   0.80   1
(BB825589) Mus musculus mammary gland RCB-0526 Jyg-MC(A) cDN...    48   0.80   1
(BB822468) Mus musculus mammary gland RCB-0526 Jyg-MC(A) cDN...    48   0.80   1
(BB822365) Mus musculus mammary gland RCB-0526 Jyg-MC(A) cDN...    48   0.80   1
(FG244122) CBYB2657.g1 CBYB Cercospora zeae-maydis cercospor...    48   0.80   1
(EK182641) 1095458129632 Global-Ocean-Sampling_GS-31-01-01-1...    40   0.85   2
(AC190792) Zea mays chromosome 2 clone CH201-215P4; ZMMBBc02...    46   0.96   6
(AC153952) Mus musculus 10 BAC RP24-82M14 (Roswell Park Canc...    38   1.1    5
(DN713328) CNB07-D03.y1d-s SHGC-CNB Gasterosteus aculeatus c...    44   1.2    2
(AL254753) Tetraodon nigroviridis genome survey sequence PUC...    40   1.3    2
(CB539253) PVEPSE2002E01.g Common bean seedling EST Library ...    44   1.5    2
(AC126288) Rattus norvegicus clone CH230-52K7, WORKING DRAFT...    36   1.6    2
(AL671765) Mouse DNA sequence from clone RP23-100L23 on chro...    36   1.6    2
(BJ336756) Dictyostelium discoideum cDNA clone:dda55e02, 5' ...    40   2.4    2
(BJ392233) Dictyostelium discoideum cDNA clone:dds26l20, 5' ...    40   2.4    2
(BJ337151) Dictyostelium discoideum cDNA clone:dda56o09, 5' ...    40   2.4    2
(BJ370130) Dictyostelium discoideum cDNA clone:ddc53c04, 5' ...    40   2.5    2
(AC153565) Mus musculus 10 BAC RP23-228H2 (Roswell Park Canc...    44   2.6    4
(AC134392) Mus musculus chromosome 16, clone RP24-346N12, co...    46   2.7    5
(AC168724) Strongylocentrotus purpuratus clone R3-3010O16, W...    40   2.9    7
(AC166303) Bos taurus clone CH240-173O1, WORKING DRAFT SEQUE...    34   2.9    9
(EJ597266) 1092961099962 Global-Ocean-Sampling_GS-29-01-01-1...    44   3.0    2
(CJ466598) Macaca fascicularis mRNA, clone: QnpA-15982, 5' e...    40   3.0    2
(DQ121095) Hucho taimen clone ZA-88 microsatellite sequence.       46   3.2    1
(DQ120981) Hucho taimen clone ZB-36 microsatellite sequence.       46   3.2    1
(BX248324) Zebrafish DNA sequence from clone DKEY-227H16 in ...    46   3.2    1
(BV125079) PZA00720 Zea mays ssp. parviglumis JSGyLOS 119 Ze...    46   3.2    1
(BX284114) Mouse DNA sequence from clone RP23-258B4 on chrom...    46   3.2    1
(AL669911) Mouse DNA sequence from clone RP23-65G8 on chromo...    46   3.2    1
(AC117701) Mus musculus chromosome 16, clone RP23-463N5, com...    46   3.2    1
(DQ834942) Cryphonectria parasitica clone PL3-D6-CPG7 micros...    46   3.2    1
(DQ144440) Ascocalyx abietina clone pGAAA-800-AU58-d microsa...    46   3.2    1
(DQ144439) Ascocalyx abietina clone pGAAA-800-B1-a microsate...    46   3.2    1
(CU640366) Podospora anserina genomic DNA chromosome 2, supe...    46   3.2    1
(BX294027) Neurospora crassa DNA linkage group V BAC contig ...    46   3.2    1
(AM270199) Aspergillus niger contig An09c0100, complete genome.    46   3.2    1
(EA713538) Sequence 92417 from patent US 7365185.                  46   3.2    1
(AC151644) Dasypus novemcinctus clone VMRC5-223I24, WORKING ...    46   3.2    1

>(BJ392027) Dictyostelium discoideum cDNA clone:dds26i02, 5' end,
           single read.
          Length = 562

 Score = 1090 bits (550), Expect = 0.0
 Identities = 562/562 (100%)
 Strand = Plus / Plus


Query: 1   ctgttggcctactggnacaacaacaacaccaccacaaccaccaattacagnaagnagnat 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ctgttggcctactggnacaacaacaacaccaccacaaccaccaattacagnaagnagnat 60


Query: 61  tagatttttagcattatttaaaaataaatcatatagaagtgtaagatgggtaacagaaaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  tagatttttagcattatttaaaaataaatcatatagaagtgtaagatgggtaacagaaaa 120


Query: 121 agttattgaaaaagaaaaagagagtccaacattaataaagttattgaaaaccgttagaaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 agttattgaaaaagaaaaagagagtccaacattaataaagttattgaaaaccgttagaaa 180


Query: 181 tacaccaccaccagcaataaagaatgaatcagaagccaatccattcaattatttctcacc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 tacaccaccaccagcaataaagaatgaatcagaagccaatccattcaattatttctcacc 240


Query: 241 agattgcacagtgattgaaaagattttagcaaagaaagagactaaagcaggtaaatccaa 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 agattgcacagtgattgaaaagattttagcaaagaaagagactaaagcaggtaaatccaa 300


Query: 301 aaagatgacaacattttatctctgcaaatggaaaacactaccccatgaaaagagtacatg 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 aaagatgacaacattttatctctgcaaatggaaaacactaccccatgaaaagagtacatg 360


Query: 361 ggaggatgaaaatattttaatcaccgaagaggatcaagcagcaattaaacaattcaatgc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 ggaggatgaaaatattttaatcaccgaagaggatcaagcagcaattaaacaattcaatgc 420


Query: 421 caatcagttacttttggatcaaccaaagaaatatgttaatcgtccaactaaattacccat 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 caatcagttacttttggatcaaccaaagaaatatgttaatcgtccaactaaattacccat 480


Query: 481 tttcaacaatgaattggtaccaaaattccaagataacctctcattaaaggagttccaagt 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 tttcaacaatgaattggtaccaaaattccaagataacctctcattaaaggagttccaagt 540


Query: 541 tgagggtttcctatggcttagt 562
           ||||||||||||||||||||||
Sbjct: 541 tgagggtttcctatggcttagt 562

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 1,123,716,700
Number of extensions: 79989894
Number of successful extensions: 7141661
Number of sequences better than 10.0: 225
Length of query: 1236
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 1212
Effective length of database: 97,308,875,965
Effective search space: 117938357669580
Effective search space used: 117938357669580
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7. 1
Homology vs Protein 
Query= Contig-U12034-1 (Contig-U12034-1Q) /CSM_Contig/Contig-U12034-1Q.Seq.d
         (1236 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AL590430_1(AL590430|pid:none) Mouse DNA sequence from clone RP23...    74   1e-11
AL590430_2(AL590430|pid:none) Mouse DNA sequence from clone RP23...    74   1e-11
AK080927_1(AK080927|pid:none) Mus musculus 4 days neonate male a...    74   1e-11
BC150806_1(BC150806|pid:none) Mus musculus chromodomain helicase...    74   1e-11
(Q9H6D4) RecName: Full=Chromodomain-helicase-DNA-binding protein...    73   2e-11
AK296955_1(AK296955|pid:none) Homo sapiens cDNA FLJ59295 partial...    73   2e-11
AL031667_6(AL031667|pid:none) Human DNA sequence from clone RP4-...    73   2e-11
(Q8TBR9) RecName: Full=Chromodomain-helicase-DNA-binding protein...    71   7e-11
AK086118_1(AK086118|pid:none) Mus musculus 15 days embryo head c...    71   7e-11
BC156439_1(BC156439|pid:none) Synthetic construct Homo sapiens c...    71   7e-11
AK040994_1(AK040994|pid:none) Mus musculus adult male aorta and ...    71   7e-11
(Q8BYH8) RecName: Full=Chromodomain-helicase-DNA-binding protein...    71   7e-11
AB046784_1(AB046784|pid:none) Homo sapiens mRNA for KIAA1564 pro...    71   7e-11
(Q9JIX5) RecName: Full=Chromodomain-helicase-DNA-binding protein...    71   9e-11
BC168549_1(BC168549|pid:none) Xenopus tropicalis cDNA clone MGC:...    70   1e-10
(B5DE69) RecName: Full=Chromodomain-helicase-DNA-binding protein...    70   1e-10
(Q09XV5) RecName: Full=Chromodomain-helicase-DNA-binding protein...    70   2e-10
AY647157_1(AY647157|pid:none) Homo sapiens KISH2 (KISH2) mRNA, c...    67   2e-09
DQ333316_1(DQ333316|pid:none) Homo sapiens PRIC320 isoform 1 mRN...    67   2e-09
(Q3L8U1) RecName: Full=Chromodomain-helicase-DNA-binding protein...    67   2e-09
AB037837_1(AB037837|pid:none) Homo sapiens mRNA for KIAA1416 pro...    65   4e-09
AK018129_1(AK018129|pid:none) Mus musculus adult male medulla ob...    63   2e-08
(B0R0I6) RecName: Full=Chromodomain-helicase-DNA-binding protein...    62   3e-08
(A2AJK6) RecName: Full=Chromodomain-helicase-DNA-binding protein...    62   3e-08
AL928674_21(AL928674|pid:none) Zebrafish DNA sequence from clone...    62   3e-08
BC168553_1(BC168553|pid:none) Xenopus tropicalis chromodomain he...    61   7e-08
AE014134_63(AE014134|pid:none) Drosophila melanogaster chromosom...    54   9e-06
AE014134_62(AE014134|pid:none) Drosophila melanogaster chromosom...    54   9e-06
BT011071_1(BT011071|pid:none) Drosophila melanogaster SD21488 fu...    51   7e-05
AK000368_1(AK000368|pid:none) Homo sapiens cDNA FLJ20361 fis, cl...    50   1e-04
AY903245_1(AY903245|pid:none) Rattus norvegicus strain WHD chrom...    50   2e-04
AL596125_1(AL596125|pid:none) Mouse DNA sequence from clone RP23...    50   2e-04
AY903247_1(AY903247|pid:none) Rattus norvegicus strain SHRSP chr...    50   2e-04
AL596125_2(AL596125|pid:none) Mouse DNA sequence from clone RP23...    50   2e-04
U91543_1(U91543|pid:none) Homo sapiens zinc-finger helicase (hZF...    48   8e-04
Z92970_2(Z92970|pid:none) Caenorhabditis elegans Fosmid H06O01, ...    48   8e-04
T23056(T23056)chromodomain helicase H06O01.2 - Caenorhabditis el...    48   8e-04
(Q12873) RecName: Full=Chromodomain-helicase-DNA-binding protein...    48   8e-04
BC156472_1(BC156472|pid:none) Synthetic construct Homo sapiens c...    48   8e-04
FN392320_97(FN392320|pid:none) Pichia pastoris GS115 chromosome ...    47   0.001
BC020810_1(BC020810|pid:none) Homo sapiens chromodomain helicase...    46   0.003
BC007347_1(BC007347|pid:none) Homo sapiens chromodomain helicase...    46   0.003
FJ515838_1(FJ515838|pid:none) Homo sapiens isolate CHD2-VI-T chr...    46   0.003
AK292850_1(AK292850|pid:none) Homo sapiens cDNA FLJ76689 partial...    46   0.003
AF006514_1(AF006514|pid:none) Homo sapiens CHD2 mRNA, complete c...    46   0.003
BT007800_1(BT007800|pid:none) Synthetic construct Homo sapiens c...    46   0.003
AM920431_481(AM920431|pid:none) Penicillium chrysogenum Wisconsi...    46   0.003
CU633901_345(CU633901|pid:none) Podospora anserina genomic DNA c...    45   0.004
AL391737_32(AL391737|pid:none) chromosome I of strain GB-M1 of E...    45   0.005
DQ402511_1(DQ402511|pid:none) Bombyx mori CHD1 (CHD1) mRNA, comp...    45   0.007
AY062186_1(AY062186|pid:none) Oryza sativa chromatin-remodeling ...    44   0.009
AP008212_463(AP008212|pid:none) Oryza sativa (japonica cultivar-...    44   0.009
AP005919_4(AP005919|pid:none) Oryza sativa Japonica Group genomi...    44   0.009
AL049607_10(AL049607|pid:none) Arabidopsis thaliana DNA chromoso...    44   0.012
AE016820_492(AE016820|pid:none) Ashbya gossypii (= Eremothecium ...    43   0.027
AB185399_1(AB185399|pid:none) Elaphe quadrivirgata CHD1 mRNA for...    42   0.045
(O14646) RecName: Full=Chromodomain-helicase-DNA-binding protein...    42   0.045
AK153826_1(AK153826|pid:none) Mus musculus 2 days neonate thymus...    42   0.045
AF181828_1(AF181828|pid:none) Nymphicus hollandicus chromosome Z...    42   0.045
(Q14839) RecName: Full=Chromodomain-helicase-DNA-binding protein...    42   0.045
AE014296_3433(AE014296|pid:none) Drosophila melanogaster chromos...    42   0.045
(Q6PDQ2) RecName: Full=Chromodomain-helicase-DNA-binding protein...    42   0.045
AK220473_1(AK220473|pid:none) Mus musculus mRNA for mKIAA4075 pr...    42   0.045
BC117134_1(BC117134|pid:none) Homo sapiens chromodomain helicase...    42   0.045
AF119716_1(AF119716|pid:none) Drosophila melanogaster dMi-2 prot...    42   0.045
(Q9US25) RecName: Full=Chromodomain helicase hrp1;          EC=3...    42   0.059
BC155799_1(BC155799|pid:none) Danio rerio wu:fd12d03, mRNA (cDNA...    42   0.059
AF181824_1(AF181824|pid:none) Aegolius funereus chromosome W chr...    42   0.059
AY217131_1(AY217131|pid:none) Taeniopygia guttata chromo-helicas...    42   0.059
AF004397_1(AF004397|pid:none) Gallus gallus chromo-helicase-DNA-...    42   0.059
AP007169_330(AP007169|pid:none) Aspergillus oryzae RIB40 genomic...    41   0.077
FN357317_37(FN357317|pid:none) Schistosoma mansoni genome sequen...    41   0.077
AF308445_1(AF308445|pid:none) Caenorhabditis elegans LET-418 (le...    41   0.10
EU415349_1(EU415349|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
EU415346_1(EU415346|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
EU415344_1(EU415344|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
AM468251_5(AM468251|pid:none) Vitis vinifera contig VV78X201737....    41   0.10
EU415352_1(EU415352|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
EU415335_1(EU415335|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
EU415360_1(EU415360|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
EU415332_1(EU415332|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
EU415342_1(EU415342|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
EU415356_1(EU415356|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
CR380958_504(CR380958|pid:none) Candida glabrata strain CBS138 c...    41   0.10
EU415336_1(EU415336|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
EU415333_1(EU415333|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
EU415343_1(EU415343|pid:none) Drosophila melanogaster clone CHD_...    41   0.10
CP000500_338(CP000500|pid:none) Pichia stipitis CBS 6054 chromos...    40   0.13
BC115822_1(BC115822|pid:none) Mus musculus chromodomain helicase...    40   0.13
AK140386_1(AK140386|pid:none) Mus musculus 4 days neonate thymus...    40   0.13
(P40201) RecName: Full=Chromodomain-helicase-DNA-binding protein...    40   0.13
CP001575_88(CP001575|pid:none) Micromonas sp. RCC299 chromosome ...    40   0.17
T33152(T33152)hypothetical protein T04D1.4 - Caenorhabditis eleg...    40   0.17
AM270162_16(AM270162|pid:none) Aspergillus niger contig An08c007...    39   0.29
AK045449_1(AK045449|pid:none) Mus musculus adult male corpora qu...    39   0.29
(Q9S775) RecName: Full=CHD3-type chromatin-remodeling factor PIC...    39   0.29
AL117491_1(AL117491|pid:none) Homo sapiens mRNA; cDNA DKFZp434N2...    39   0.38
CS300694_1(CS300694|pid:none) Sequence 202 from Patent EP1661986.      39   0.38
AL031847_16(AL031847|pid:none) Human DNA sequence from clone RP1...    39   0.38
(Q8TDI0) RecName: Full=Chromodomain-helicase-DNA-binding protein...    39   0.38
AK127046_1(AK127046|pid:none) Homo sapiens cDNA FLJ45103 fis, cl...    39   0.38
CR954201_555(CR954201|pid:none) Ostreococcus tauri strain OTTH05...    39   0.50
AB326217_1(AB326217|pid:none) Gekko hokouensis CHD1 mRNA for chr...    39   0.50
AE017349_101(AE017349|pid:none) Cryptococcus neoformans var. neo...    38   0.65
AF007780_1(AF007780|pid:none) Drosophila melanogaster CHD3 mRNA,...    38   0.65
CR382129_11(CR382129|pid:none) Yarrowia lipolytica strain CLIB12...    38   0.85
CU928171_608(CU928171|pid:none) Kluyveromyces thermotolerans str...    37   1.1
BC133719_1(BC133719|pid:none) Xenopus tropicalis chromodomain he...    35   4.2
(Q22516) RecName: Full=Chromodomain-helicase-DNA-binding protein...    35   5.5
CU928174_486(CU928174|pid:none) Zygosaccharomyces rouxii strain ...    35   5.5
(O14139) RecName: Full=Chromodomain helicase hrp3;          EC=3...    35   5.5
AP009325_15(AP009325|pid:none) Musa balbisiana genomic DNA, BAC ...    35   7.2
EU407795_5(EU407795|pid:none) Caenorhabditis briggsae strain JU4...    34   9.5
EU407802_5(EU407802|pid:none) Caenorhabditis briggsae strain PB8...    34   9.5
EU407781_5(EU407781|pid:none) Caenorhabditis briggsae strain BW2...    34   9.5

>AL590430_1(AL590430|pid:none) Mouse DNA sequence from clone
           RP23-384K10 on chromosome 2 Contains the 3' end of the
           Chd6 gene for chromodomain helicase DNA binding protein
           6, complete sequence.
          Length = 2711

 Score = 73.9 bits (180), Expect = 1e-11
 Identities = 50/165 (30%), Positives = 83/165 (50%)
 Frame = +2

Query: 65  FLALFKNKSYRSVRWVTEKVIEKEKESPTLIKLLKTVRNTPPPAIKNESEANPFNYFSPD 244
           F   ++N SY   +W T + +EK+   P + + +K  RN         +E +  + F+PD
Sbjct: 317 FYVKYRNFSYLHCKWATMEELEKD---PRIAQKIKRFRNKQAQMKHIFTEPDE-DLFNPD 372

Query: 245 CTVIEKILAXXXXXXXXXXXMTTFYLCKWKTLPHEKSTWEDENILITEEDQAAIKQFNAN 424
              I++IL              T YL KW +LP+E+STWE E     + D A +K+F +
Sbjct: 373 YIEIDRILEVAHTKDAETGEEVTHYLVKWCSLPYEESTWELEE----DVDPAKVKEFESL 428

Query: 425 QLLLDQPKKYVNRPTKLPIFNNELVPKFQDNLSLKEFQVEGFLWL 559
           Q+L +   K+V RP        E   +++++  L+E+Q+EG  WL
Sbjct: 429 QILPE--VKHVERPASDAWQKLETSREYRNSNRLREYQLEGMNWL 471

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: 1,345,067,725
Number of extensions: 26657557
Number of successful extensions: 53490
Number of sequences better than 10.0: 115
Number of HSP's gapped: 53354
Number of HSP's successfully gapped: 115
Length of query: 412
Length of database: 1,051,180,864
Length adjustment: 131
Effective length of query: 281
Effective length of database: 627,191,635
Effective search space: 176240849435
Effective search space used: 176240849435
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: 0.85  gvh: 0.30  alm: 0.47  top: 0.80  tms: 0.00  mit: 0.44  mip: 0.07
 nuc: 0.00  erl: 0.00  erm: 0.40  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 

	 40.0 %: mitochondrial
	 36.0 %: cytoplasmic
	 24.0 %: nuclear

>> prediction for Contig-U12034-1 is mit
VS (DIR, S) 0
VH (FL, L) 0
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