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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-U08146-1
Contig ID Contig-U08146-1
Contig update 2002. 5. 9
Contig sequence 
>Contig-U08146-1 (Contig-U08146-1Q) /CSM_Contig/Contig-U08146-1Q.Seq.d
CAACAACAACAACAACAGACACTACTACCACTGCAACACCAAAATCCCCC
AAAAATCTCCCTCCAATAAAATCATTACCAACAACAACTACTACAACAAC
AACAACAACACCAACAACACCAAAAATAGATTCATCAACATCAACACCAT
CAATTGAAGATGGCGAAGATGATCTTTGTGGTATTGAAATAGAAGAGTTT
AAGGATAAAAAGAAAAAAGTAGAAAATGATAAAATTACAAAGGATATTTT
AGGTCAAGTTGATAAATTACTCAAGAAAGAAACCAAGAAAGTCGATGATA
GTGACACTGAAGATGACGAAGAAGAAGAGGAAGAAGAAGTTTTATTTGTA
AACAAAAAGAGAAAATCGAATCCATTAGATGGTAGTAGTACACCAACTAA
ACCAAAATCAAAACCAAAACCAAAGAAAATTATAATTGAAGATGATAGTG
AAACTGAAGATGAAAAATCTCAAATAATTGAAATTGATGATGAAAAAGAA
GAAGAAAAACAAGTTGAACAAGTTGAACAAGTTGAACAAGTTGAACAAGT
TGAACAAGAAGAAGGAGAAGAAGAAGAAGAAGAAGAAATTGAATCAGAAC
CAACTATTGAAAGATTAATTTATGCATGTGAATGTTTTTCAAAGAGAATG
CTTGAAATTTTATCAAATGCAGAAGATTCAACAATAAATACTACTACCAC
TGCCGCTCAACTTCAACAACAACTCAACAACA
Gap no gap
Contig length 732
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 323288
End point 322617
Strand (PLUS/MINUS) MINUS
Number of clones 4
Number of EST 4
Link to clone list U08146
List of clone(s) 

est1=AFK270Z,-154,432
est2=AFG757Z,-32,436
est3=AFO701Z,4,733
est4=CFJ131Z,96,733
Translated Amino Acid sequence 
TTTTTDTTTTATPKSPKNLPPIKSLPTTTTTTTTTTPTTPKIDSSTSTPSIEDGEDDLCG
IEIEEFKDKKKKVENDKITKDILGQVDKLLKKETKKVDDSDTEDDEEEEEEEVLFVNKKR
KSNPLDGSSTPTKPKSKPKPKKIIIEDDSETEDEKSQIIEIDDEKEEEKQVEQVEQVEQV
EQVEQEEGEEEEEEEIESEPTIERLIYACECFSKRMLEILSNAEDSTINTTTTAAQLQQQ
LNN
Translated Amino Acid sequence (All Frames) 
Frame A:
qqqqqqtllplqhqnppkislq*nhyqqqllqqqqqhqqhqk*ihqhqhhqlkmakmifv
vlk*kslrikrkk*kmiklqrif*vklinysrkkprksmivtlkmtkkkrkkkfyl*tkr
enrih*mvvvhqlnqnqnqnqrkl*lkmivklkmknlk*lklmmkkkkknklnklnklnk
lnklnkkkekkkkkkklnqnqllkd*fmhvnvfqreclkfyqmqkiqq*illplplnfnn
nstt


Frame B:
nnnnnrhyyhcntkipqkspsnkiitnnnyynnnnntnntknrfinintin*rwrr*slw
y*nrrv*g*keksrk**nykgyfrss**itqernqesr***h*r*rrrrgrrsfickqke
kiesirw**ytn*tkiktktkenyn*r***n*r*kisnn*n***krrrkts*ts*ts*ts
*ts*trrrrrrrrrrn*irtny*kinlcm*mffkena*nfikcrrfnnkyyyhcrststt
tqq


Frame C:
TTTTTDTTTTATPKSPKNLPPIKSLPTTTTTTTTTTPTTPKIDSSTSTPSIEDGEDDLCG
IEIEEFKDKKKKVENDKITKDILGQVDKLLKKETKKVDDSDTEDDEEEEEEEVLFVNKKR
KSNPLDGSSTPTKPKSKPKPKKIIIEDDSETEDEKSQIIEIDDEKEEEKQVEQVEQVEQV
EQVEQEEGEEEEEEEIESEPTIERLIYACECFSKRMLEILSNAEDSTINTTTTAAQLQQQ
LNN
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U08146-1 (Contig-U08146-1Q)
/CSM_Contig/Contig-U08146-1Q.Seq.d
         (732 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U08146-1 (Contig-U08146-1Q) /CSM_Contig/Conti...   321  6e-88
Contig-U14170-1 (Contig-U14170-1Q) /CSM_Contig/Conti...    40  0.003
Contig-U12100-1 (Contig-U12100-1Q) /CSM_Contig/Conti...    38  0.013
Contig-U11920-1 (Contig-U11920-1Q) /CSM_Contig/Conti...    38  0.013
Contig-U14885-1 (Contig-U14885-1Q) /CSM_Contig/Conti...    36  0.051
Contig-U14010-1 (Contig-U14010-1Q) /CSM_Contig/Conti...    36  0.051
Contig-U13898-1 (Contig-U13898-1Q) /CSM_Contig/Conti...    36  0.051
Contig-U12951-1 (Contig-U12951-1Q) /CSM_Contig/Conti...    36  0.051
Contig-U12535-1 (Contig-U12535-1Q) /CSM_Contig/Conti...    36  0.051
Contig-U11893-1 (Contig-U11893-1Q) /CSM_Contig/Conti...    36  0.051

>Contig-U08146-1 (Contig-U08146-1Q) /CSM_Contig/Contig-U08146-1Q.Seq.d
          Length = 732

 Score =  321 bits (162), Expect = 6e-88
 Identities = 186/198 (93%)
 Strand = Plus / Plus

                                                                       
Query: 120 ccaaaaatagattcatcaacatcaacaccatcaattgaagatggcgaagatgatctttgt 179
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120 ccaaaaatagattcatcaacatcaacaccatcaattgaagatggcgaagatgatctttgt 179

                                                                       
Query: 180 ggtattgaaatagaagagtttaaggatnnnnnnnnnnnngtagaaaatgataaaattaca 239
           |||||||||||||||||||||||||||            |||||||||||||||||||||
Sbjct: 180 ggtattgaaatagaagagtttaaggataaaaagaaaaaagtagaaaatgataaaattaca 239

                                                                       
Query: 240 aaggatattttaggtcaagttgataaattactcaagaaagaaaccaagaaagtcgatgat 299
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 240 aaggatattttaggtcaagttgataaattactcaagaaagaaaccaagaaagtcgatgat 299

                             
Query: 300 agtgacactgaagatgac 317
           ||||||||||||||||||
Sbjct: 300 agtgacactgaagatgac 317


 Score =  287 bits (145), Expect = 8e-78
 Identities = 145/145 (100%)
 Strand = Plus / Plus

                                                                       
Query: 588 attgaatcagaaccaactattgaaagattaatttatgcatgtgaatgtttttcaaagaga 647
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 588 attgaatcagaaccaactattgaaagattaatttatgcatgtgaatgtttttcaaagaga 647

                                                                       
Query: 648 atgcttgaaattttatcaaatgcagaagattcaacaataaatactactaccactgccgct 707
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 648 atgcttgaaattttatcaaatgcagaagattcaacaataaatactactaccactgccgct 707

                                    
Query: 708 caacttcaacaacaactcaacaaca 732
           |||||||||||||||||||||||||
Sbjct: 708 caacttcaacaacaactcaacaaca 732


 Score =  133 bits (67), Expect = 3e-31
 Identities = 67/67 (100%)
 Strand = Plus / Plus

                                                                       
Query: 430 ttataattgaagatgatagtgaaactgaagatgaaaaatctcaaataattgaaattgatg 489
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 430 ttataattgaagatgatagtgaaactgaagatgaaaaatctcaaataattgaaattgatg 489

                  
Query: 490 atgaaaa 496
           |||||||
Sbjct: 490 atgaaaa 496


 Score =  121 bits (61), Expect = 1e-27
 Identities = 61/61 (100%)
 Strand = Plus / Plus

                                                                      
Query: 18 gacactactaccactgcaacaccaaaatcccccaaaaatctccctccaataaaatcatta 77
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18 gacactactaccactgcaacaccaaaatcccccaaaaatctccctccaataaaatcatta 77

           
Query: 78 c 78
          |
Sbjct: 78 c 78


 Score =  117 bits (59), Expect = 2e-26
 Identities = 59/59 (100%)
 Strand = Plus / Plus

                                                                      
Query: 340 ttttatttgtaaacaaaaagagaaaatcgaatccattagatggtagtagtacaccaact 398
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 340 ttttatttgtaaacaaaaagagaaaatcgaatccattagatggtagtagtacaccaact 398


 Score = 38.2 bits (19), Expect = 0.013
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                  
Query: 294 gatgatagtgacactgaagatga 316
           ||||||||||| |||||||||||
Sbjct: 441 gatgatagtgaaactgaagatga 463


 Score = 38.2 bits (19), Expect = 0.013
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                  
Query: 441 gatgatagtgaaactgaagatga 463
           ||||||||||| |||||||||||
Sbjct: 294 gatgatagtgacactgaagatga 316


>Contig-U14170-1 (Contig-U14170-1Q) /CSM_Contig/Contig-U14170-1Q.Seq.d
          Length = 1167

 Score = 40.1 bits (20), Expect = 0.003
 Identities = 20/20 (100%)
 Strand = Plus / Plus

                               
Query: 434 aattgaagatgatagtgaaa 453
           ||||||||||||||||||||
Sbjct: 219 aattgaagatgatagtgaaa 238


>Contig-U12100-1 (Contig-U12100-1Q) /CSM_Contig/Contig-U12100-1Q.Seq.d
          Length = 3145

 Score = 38.2 bits (19), Expect = 0.013
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                               
Query: 688  atactactaccactgccgc 706
            |||||||||||||||||||
Sbjct: 1720 atactactaccactgccgc 1702


  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: 10,506
Number of Sequences: 6905
Number of extensions: 10506
Number of successful extensions: 1410
Number of sequences better than 10.0: 169
length of query: 732
length of database: 5,674,871
effective HSP length: 16
effective length of query: 716
effective length of database: 5,564,391
effective search space: 3984103956
effective search space used: 3984103956
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 2008.11.12
Homology vs DNA 
Query= Contig-U08146-1 (Contig-U08146-1Q) /CSM_Contig/Contig-U08146-1Q.Seq.d
         (732 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

(BJ346142) Dictyostelium discoideum cDNA clone:dda30b01, 3' ...   287   e-176  5
(BJ375631) Dictyostelium discoideum cDNA clone:ddc19m07, 3' ...   238   e-139  5
(BJ342538) Dictyostelium discoideum cDNA clone:dda14b15, 3' ...   117   7e-83  5
(BJ345109) Dictyostelium discoideum cDNA clone:dda21k18, 3' ...   117   2e-82  5
(FE807068) CCAG27201.g1 CCAG Petrolisthes cinctipes heart, g...    54   0.008  1
(AC143840) Macaca mulatta  BAC CH250-270K15 (Children's Hosp...    50   0.12   1
(CP000814) Campylobacter jejuni subsp. jejuni 81116, complet...    50   0.12   1
(CP000025) Campylobacter jejuni RM1221, complete genome.           50   0.12   1
(AB093510) Saccharomyces exiguus VMA1-2 gene for vacuolar me...    46   1.8    1
(AC022313) Homo sapiens BAC clone RP11-437G1 from 4, complet...    46   1.8    1
(AC145193) Gallus gallus clone CH261-91D6, WORKING DRAFT SEQ...    46   1.8    1
(BH508614) BOGYC81TF BOGY Brassica oleracea genomic clone BO...    46   1.8    1
(FH713925) CHO_OF5044xc21f1.ab1 CHO_OF5 Nicotiana tabacum ge...    46   1.8    1
(BZ037539) oeg07a11.g1 B.oleracea002 Brassica oleracea genom...    46   1.8    1
(BJ345110) Dictyostelium discoideum cDNA clone:dda21l13, 3' ...    46   1.8    1
(FE829626) CCAG42318.g1 CCAG Petrolisthes cinctipes heart, g...    46   1.8    1
(FE798971) CCAG22354.g1 CCAG Petrolisthes cinctipes heart, g...    46   1.8    1
(FD418364) LB00022R_T3_022_H09_17JUN2004_065_ab1 CrUniGene l...    36   2.5    2
(FD419208) LB00032R_T3_032_E06_19JUN2004_040_ab1 CrUniGene l...    36   3.1    2
(AC078857) Homo sapiens 3 BAC RP11-678L1 (Roswell Park Cance...    36   3.9    5
(EJ990084) 1093023042134 Global-Ocean-Sampling_GS-30-02-01-1...    34   4.7    2
(EJ968500) 1093022061911 Global-Ocean-Sampling_GS-30-02-01-1...    34   4.7    2
(AM475762) Vitis vinifera contig VV78X261919.3, whole genome...    36   7.1    2
(AC117075) Dictyostelium discoideum chromosome 2 map 5201047...    36   7.2    6
(BX571971) Zebrafish DNA sequence from clone DKEY-227K11 in ...    44   7.3    1
(AP006270) Adoxophyes honmai nucleopolyhedrovirus DNA, compl...    44   7.3    1
(G84298) S208P6278RC4.T0 129S1/SvImJ Mus musculus STS genomi...    44   7.3    1
(AL683896) Mouse DNA sequence from clone RP23-184N2 on chrom...    44   7.3    1
(AC164171) Mus musculus 10 BAC RP24-574G7 (Roswell Park Canc...    44   7.3    1
(AC153981) Mus musculus 10 BAC RP24-112H16 (Roswell Park Can...    44   7.3    1
(AP010401) Lotus japonicus genomic DNA, chromosome 5, clone:...    44   7.3    1
(EA427602) Sequence 77 from patent US 7332281.                     44   7.3    1
(EA372345) Sequence 5 from patent US 7312376.                      44   7.3    1
(EA237148) Sequence 101463 from patent US 7214786.                 44   7.3    1
(DL007621) NOVEL THERAPEUTIC TARGETS IN CANCER.                    44   7.3    1
(CS452886) Sequence 5 from Patent WO2006115575.                    44   7.3    1
(AC159516) Bos taurus clone CH240-75C17, WORKING DRAFT SEQUE...    44   7.3    1
(AC055776) Mus musculus chromosome 10 clone RP23-11O15 map 1...    44   7.3    1
(AC164174) Mus musculus clone RP24-156E18, WORKING DRAFT SEQ...    44   7.3    1
(EJ368586) 1092963714914 Global-Ocean-Sampling_GS-28-01-01-1...    44   7.3    1
(DX784175) 2593735 VV07 Ustilago maydis genomic clone 110956...    44   7.3    1
(DX739976) 2212241 VV03 Ustilago maydis genomic clone 863037...    44   7.3    1
(DX731009) 2245705 VV03 Ustilago maydis genomic clone 884280...    44   7.3    1
(DU054976) 93561 Tomato HindIII BAC Library Solanum lycopers...    44   7.3    1
(CW302288) 104_786_11464642_148_35669_041 Sorghum methylatio...    44   7.3    1
(CL151551) 104_334_10779328_114_31361_112 Sorghum methylatio...    44   7.3    1
(CE317363) tigr-gss-dog-17000360426341 Dog Library Canis lup...    44   7.3    1
(EL602218) He_pwd_0131C07_M13R Heliconius erato pooled wing ...    44   7.3    1
(EB153425) 030303ABEB001550HT (ABEB) Royal Gala seedling lea...    44   7.3    1
(CU388618) Microbotryum violaceum EST isolate S.latifolia.         44   7.3    1
(CU383822) Microbotryum violaceum EST isolate S.latifolia.         44   7.3    1
(CU380368) Microbotryum violaceum EST isolate S.latifolia.         44   7.3    1
(CU379494) Microbotryum violaceum EST isolate S.latifolia.         44   7.3    1
(CU377009) Microbotryum violaceum EST isolate S.latifolia.         44   7.3    1
(CU376481) Microbotryum violaceum EST isolate S.latifolia.         44   7.3    1
(CU372985) Microbotryum violaceum EST isolate S.latifolia.         44   7.3    1
(CU372736) Microbotryum violaceum EST isolate S.latifolia.         44   7.3    1
(CU372495) Microbotryum violaceum EST isolate S.latifolia.         44   7.3    1
(AJ638451) Mycosphaerella graminicola EST, MgC Library, clon...    44   7.3    1
(CA742553) wri1s.pk001.i2 wri1s Triticum aestivum cDNA clone...    44   7.3    1
(AC213924) Populus trichocarpa clone POP042-A21, complete se...    40   7.6    4
(DR113530) 1429670 MARC 7BOV Bos taurus cDNA 3', mRNA sequence.    40   8.9    2

>(BJ346142) Dictyostelium discoideum cDNA clone:dda30b01, 3' end,
           single read.
          Length = 730

 Score =  287 bits (145), Expect(5) = e-176
 Identities = 145/145 (100%)
 Strand = Plus / Minus


Query: 588 attgaatcagaaccaactattgaaagattaatttatgcatgtgaatgtttttcaaagaga 647
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 146 attgaatcagaaccaactattgaaagattaatttatgcatgtgaatgtttttcaaagaga 87


Query: 648 atgcttgaaattttatcaaatgcagaagattcaacaataaatactactaccactgccgct 707
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 86  atgcttgaaattttatcaaatgcagaagattcaacaataaatactactaccactgccgct 27


Query: 708 caacttcaacaacaactcaacaaca 732
           |||||||||||||||||||||||||
Sbjct: 26  caacttcaacaacaactcaacaaca 2

 Score =  117 bits (59), Expect(5) = e-176
 Identities = 59/59 (100%)
 Strand = Plus / Minus


Query: 340 ttttatttgtaaacaaaaagagaaaatcgaatccattagatggtagtagtacaccaact 398
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 394 ttttatttgtaaacaaaaagagaaaatcgaatccattagatggtagtagtacaccaact 336

 Score =  107 bits (54), Expect(5) = e-176
 Identities = 54/54 (100%)
 Strand = Plus / Minus


Query: 219 gtagaaaatgataaaattacaaaggatattttaggtcaagttgataaattactc 272
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 515 gtagaaaatgataaaattacaaaggatattttaggtcaagttgataaattactc 462

 Score =  107 bits (54), Expect(5) = e-176
 Identities = 56/57 (98%)
 Strand = Plus / Minus


Query: 22  ctactaccactgcaacaccaaaatcccccaaaaatctccctccaataaaatcattac 78
           |||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 712 ctactaccnctgcaacaccaaaatcccccaaaaatctccctccaataaaatcattac 656

 Score =  105 bits (53), Expect(5) = e-176
 Identities = 53/53 (100%)
 Strand = Plus / Minus


Query: 154 ttgaagatggcgaagatgatctttgtggtattgaaatagaagagtttaaggat 206
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 580 ttgaagatggcgaagatgatctttgtggtattgaaatagaagagtttaaggat 528

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 486,323,484
Number of extensions: 30060703
Number of successful extensions: 2461205
Number of sequences better than 10.0: 62
Length of query: 732
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 708
Effective length of database: 97,308,875,965
Effective search space: 68894684183220
Effective search space used: 68894684183220
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 6.24
Homology vs Protein 
Query= Contig-U08146-1 (Contig-U08146-1Q) /CSM_Contig/Contig-U08146-1Q.Seq.d
         (732 letters)

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

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

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

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: 403,200,139
Number of extensions: 3047248
Number of successful extensions: 2380
Number of sequences better than 10.0: 0
Number of HSP's gapped: 2380
Number of HSP's successfully gapped: 0
Length of query: 244
Length of database: 1,040,966,779
Length adjustment: 125
Effective length of query: 119
Effective length of database: 640,431,154
Effective search space: 76211307326
Effective search space used: 76211307326
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: 31 (16.5 bits)
PSORT 

 psg: 0.75  gvh: 0.31  alm: 0.48  top: 0.53  tms: 0.00  mit: 0.49  mip: 0.00
 nuc: 0.17  erl: 0.00  erm: 0.00  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 

	 48.0 %: mitochondrial
	 28.0 %: cytoplasmic
	 16.0 %: nuclear
	  4.0 %: peroxisomal
	  4.0 %: endoplasmic reticulum

>> prediction for Contig-U08146-1 is mit
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 3
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 1
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0