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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-U14762-1
Contig ID Contig-U14762-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14762-1 (Contig-U14762-1Q) /CSM_Contig/Contig-U14762-1Q.Seq.d
CAAAAACAATTAGCATTCTAGCAACAACCAATTTTTTTTAAATAAAAATT
TTGAAATTAATAATAATATTAACAACCACGACGATAATATCAATAATATC
AATAACAATATTATTAATAATAACAATAGTAATAATAATACTACAACGAC
AACAACTACAACAACTACAACANCAACGACAAATTCANTAGAAAGAAATA
GTGCAACAATAGCANAAGAACAATTACAAAATCAATTATTAAGTTCTATT
ACACCAAAAACATCAATTAGAAAGAAATCTACATCATCGGTTGCACCAGT
TGCATTGACAAAGGATTATTTATCACAATTTAGTGAAGACGACAGCATCT
GAATTTACAACTAAAGGTGCACCAATTAAACCATACAAATTAACAAGGAA
AATGTCAAATCTTAGTAATAGTAGTGCTGGTTTAAGTATTGTTTCATTTA
GTCAATTANATGTTCACGATTCTGATTTATTATTGTCAAATTTTAATAAA
CTCTCTGTAGAACAACAAGAACAAATTCGTGCATCATCACCTAATAAGCA
NNNNNNNNN
Gap no gap
Contig length 559
Chromosome number (1..6, M) 4
Chromosome length 5430582
Start point 3993849
End point 3994398
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U14762
List of clone(s) 

est1=VHB383F,1,550
Translated Amino Acid sequence 
knn*HSSNNQFFLNKNFEINNNINNHDDNINNINNNIINNNNSNNNTTTTTTTTTTTXTT
NSXERNSATIAXEQLQNQLLSSITPKTSIRKKSTSSVAPVALTKDYLSQFSEDDSI*iyn
*rctn*tiqinkenvks****cwfkycfi*sixcsrf*fiivkf**tlcrttrtnsciit
**axxx
Translated Amino Acid sequence (All Frames) 
Frame A:
qkqlaf*qqpiffk*kf*n***y*qprr*yq*yq*qyy***q****yyndnnynnynxnd
kfxrkk*cnnsxrtitksiikfyytknin*keiyiigctscidkglfiti**rrqhlnlq
lkvhqlnhtn*qgkcqilvivvlv*vlfhlvnxmftiliyycqilinsl*nnknkfvhhh
lisxxx


Frame B:
knn*HSSNNQFFLNKNFEINNNINNHDDNINNINNNIINNNNSNNNTTTTTTTTTTTXTT
NSXERNSATIAXEQLQNQLLSSITPKTSIRKKSTSSVAPVALTKDYLSQFSEDDSI*iyn
*rctn*tiqinkenvks****cwfkycfi*sixcsrf*fiivkf**tlcrttrtnsciit
**axxx


Frame C:
ktisilattnff*ikilkliiilttttiisiisitilliitiviiilqrqqlqqlqxqrq
ix*keivqq*xknnykiny*vllhqkhqlernlhhrlhqlh*qriiyhnlvkttaseftt
kgapikpykltrkmsnlsnssaglsivsfsqlxvhdsdlllsnfnklsveqqeqirassp
nkxxx
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14762-1 (Contig-U14762-1Q)
/CSM_Contig/Contig-U14762-1Q.Seq.d
         (559 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14762-1 (Contig-U14762-1Q) /CSM_Contig/Conti...   712  0.0
Contig-U13423-1 (Contig-U13423-1Q) /CSM_Contig/Conti...    38  0.010
Contig-U12263-1 (Contig-U12263-1Q) /CSM_Contig/Conti...    38  0.010
Contig-U14621-1 (Contig-U14621-1Q) /CSM_Contig/Conti...    36  0.039
Contig-U14562-1 (Contig-U14562-1Q) /CSM_Contig/Conti...    36  0.039
Contig-U11921-1 (Contig-U11921-1Q) /CSM_Contig/Conti...    36  0.039
Contig-U11429-1 (Contig-U11429-1Q) /CSM_Contig/Conti...    36  0.039
Contig-U11177-1 (Contig-U11177-1Q) /CSM_Contig/Conti...    36  0.039
Contig-U09327-1 (Contig-U09327-1Q) /CSM_Contig/Conti...    36  0.039
Contig-U07120-1 (Contig-U07120-1Q) /CSM_Contig/Conti...    36  0.039

>Contig-U14762-1 (Contig-U14762-1Q) /CSM_Contig/Contig-U14762-1Q.Seq.d
          Length = 559

 Score =  712 bits (359), Expect = 0.0
 Identities = 368/368 (100%)
 Strand = Plus / Plus

                                                                       
Query: 183 attcantagaaagaaatagtgcaacaatagcanaagaacaattacaaaatcaattattaa 242
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 183 attcantagaaagaaatagtgcaacaatagcanaagaacaattacaaaatcaattattaa 242

                                                                       
Query: 243 gttctattacaccaaaaacatcaattagaaagaaatctacatcatcggttgcaccagttg 302
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 243 gttctattacaccaaaaacatcaattagaaagaaatctacatcatcggttgcaccagttg 302

                                                                       
Query: 303 cattgacaaaggattatttatcacaatttagtgaagacgacagcatctgaatttacaact 362
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 303 cattgacaaaggattatttatcacaatttagtgaagacgacagcatctgaatttacaact 362

                                                                       
Query: 363 aaaggtgcaccaattaaaccatacaaattaacaaggaaaatgtcaaatcttagtaatagt 422
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 363 aaaggtgcaccaattaaaccatacaaattaacaaggaaaatgtcaaatcttagtaatagt 422

                                                                       
Query: 423 agtgctggtttaagtattgtttcatttagtcaattanatgttcacgattctgatttatta 482
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 423 agtgctggtttaagtattgtttcatttagtcaattanatgttcacgattctgatttatta 482

                                                                       
Query: 483 ttgtcaaattttaataaactctctgtagaacaacaagaacaaattcgtgcatcatcacct 542
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 483 ttgtcaaattttaataaactctctgtagaacaacaagaacaaattcgtgcatcatcacct 542

                   
Query: 543 aataagca 550
           ||||||||
Sbjct: 543 aataagca 550


 Score =  117 bits (59), Expect = 1e-26
 Identities = 75/83 (90%)
 Strand = Plus / Plus

                                                                      
Query: 1  caaaaacaattagcattctagcaacaaccaannnnnnnnaaataaaaattttgaaattaa 60
          |||||||||||||||||||||||||||||||        |||||||||||||||||||||
Sbjct: 1  caaaaacaattagcattctagcaacaaccaattttttttaaataaaaattttgaaattaa 60

                                 
Query: 61 taataatattaacaaccacgacg 83
          |||||||||||||||||||||||
Sbjct: 61 taataatattaacaaccacgacg 83


>Contig-U13423-1 (Contig-U13423-1Q) /CSM_Contig/Contig-U13423-1Q.Seq.d
          Length = 1236

 Score = 38.2 bits (19), Expect = 0.010
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                               
Query: 54   aaattaataataatattaa 72
            |||||||||||||||||||
Sbjct: 1132 aaattaataataatattaa 1150


>Contig-U12263-1 (Contig-U12263-1Q) /CSM_Contig/Contig-U12263-1Q.Seq.d
          Length = 1743

 Score = 38.2 bits (19), Expect = 0.010
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 57  ttaataataatattaacaa 75
           |||||||||||||||||||
Sbjct: 180 ttaataataatattaacaa 198


  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: 18,660
Number of Sequences: 6905
Number of extensions: 18660
Number of successful extensions: 2136
Number of sequences better than 10.0: 841
length of query: 559
length of database: 5,674,871
effective HSP length: 16
effective length of query: 543
effective length of database: 5,564,391
effective search space: 3021464313
effective search space used: 3021464313
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 14 (28.2 bits)
dna update 2008.12.31
Homology vs DNA 
Query= Contig-U14762-1 (Contig-U14762-1Q) /CSM_Contig/Contig-U14762-1Q.Seq.d
         (559 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

(BJ418734) Dictyostelium discoideum cDNA clone:ddv33f21, 5' ...   712   0.0    2
(AC116392) Mus musculus chromosome 10, clone RP23-93D3, comp...    50   0.086  1
(EK234917) 1095460196315 Global-Ocean-Sampling_GS-31-01-01-1...    50   0.086  1
(EK195379) 1095460036868 Global-Ocean-Sampling_GS-31-01-01-1...    50   0.086  1
(EJ154034) 1092343794328 Global-Ocean-Sampling_GS-27-01-01-1...    50   0.086  1
(ER489678) 1093015320661 Global-Ocean-Sampling_GS-35-01-01-1...    48   0.34   1
(ER325978) 1092344212919 Global-Ocean-Sampling_GS-34-01-01-1...    48   0.34   1
(EK297994) 1095462354158 Global-Ocean-Sampling_GS-31-01-01-1...    48   0.34   1
(EK182194) 1095458128039 Global-Ocean-Sampling_GS-31-01-01-1...    48   0.34   1
(EJ775564) 1092995200881 Global-Ocean-Sampling_GS-30-02-01-1...    48   0.34   1
(EJ742275) 1092962027936 Global-Ocean-Sampling_GS-30-02-01-1...    48   0.34   1
(EJ362062) 1092963690845 Global-Ocean-Sampling_GS-28-01-01-1...    48   0.34   1
(AQ842819) CpG1250B CpIOWAgDNA1 Cryptosporidium parvum genom...    44   0.64   2
(EK249019) 1095460269429 Global-Ocean-Sampling_GS-31-01-01-1...    38   0.73   2
(AC170272) Bos taurus clone CH240-255D16, WORKING DRAFT SEQU...    46   1.3    1
(AC169271) Bos taurus clone CH240-246K9, WORKING DRAFT SEQUE...    46   1.3    1
(ER548543) 1093016201127 Global-Ocean-Sampling_GS-35-01-01-1...    46   1.3    1
(EK307923) 1095462387232 Global-Ocean-Sampling_GS-31-01-01-1...    46   1.3    1
(EK034203) 1092959297789 Global-Ocean-Sampling_GS-31-01-01-1...    46   1.3    1
(CU171877) Equus caballus GSS, BAC clone CH241-319D5, T7 end...    46   1.3    1
(CU080028) Equus caballus GSS, BAC clone CH241-172K1, SP6 en...    46   1.3    1
(BF686127) 602143361F1 NIH_MGC_46 Homo sapiens cDNA clone IM...    46   1.3    1
(DB822675) Nilaparvata lugens mRNA, EST clone:NLAC0215, 5' e...    36   1.8    2
(DB822624) Nilaparvata lugens mRNA, EST clone:NLAC0085, 5' e...    36   2.1    2
(DB826939) Nilaparvata lugens mRNA, EST clone:NLHT7775, 5' e...    36   2.2    2
(DB849874) Nilaparvata lugens mRNA, EST clone:NLMA5384, 5' e...    36   2.3    2
(DB840601) Nilaparvata lugens mRNA, EST clone:NLTH8647, 5' e...    36   2.3    2
(DB827453) Nilaparvata lugens mRNA, EST clone:NLHT9936, 5' e...    36   2.3    2
(DB837273) Nilaparvata lugens mRNA, EST clone:NLTH1024, 5' e...    36   2.3    2
(DB852779) Nilaparvata lugens mRNA, EST clone:NLNA1662, 5' e...    36   2.4    2
(EK326413) 1095467008203 Global-Ocean-Sampling_GS-31-01-01-1...    42   2.4    2
(CK397174) AGENCOURT_17388677 NIH_ZGC_4 Danio rerio cDNA clo...    38   2.4    2
(DB825813) Nilaparvata lugens mRNA, EST clone:NLHT2417, 5' e...    36   2.5    2
(DB857863) Nilaparvata lugens mRNA, EST clone:NLSG4468, 5' e...    36   2.5    2
(DB853069) Nilaparvata lugens mRNA, EST clone:NLNA2497, 5' e...    36   2.6    2
(CR318604) Zebrafish DNA sequence from clone CH211-222E24 in...    44   4.7    4
(CT831494) Oryza sativa (indica cultivar-group) cDNA clone:O...    44   5.3    1
(AP008217) Oryza sativa (japonica cultivar-group) genomic DN...    44   5.3    1
(AK107423) Oryza sativa Japonica Group cDNA clone:002-127-F0...    44   5.3    1
(AC134048) Oryza sativa Japonica Group chromosome 11 clone O...    44   5.3    1
(AC126056) Oryza sativa Japonica Group chromosome 11 clone B...    44   5.3    1
(AC186949) Felis catus clone RP86-82C22, WORKING DRAFT SEQUE...    44   5.3    1
(ER417207) 1092963677225 Global-Ocean-Sampling_GS-35-01-01-1...    44   5.3    1
(EJ350642) 1092963584130 Global-Ocean-Sampling_GS-28-01-01-1...    44   5.3    1
(ED623867) GM_WBa0020I02.f GM_WBa Glycine max genomic clone ...    44   5.3    1
(AG858307) Oryza sativa Indica Group genomic DNA, BAC end se...    44   5.3    1
(EB396701) PMAO-aaa24b03.g1 Lamprey_EST_Embryo Petromyzon ma...    44   5.3    1
(EB393042) PMAO-aaa50b07.g1 Lamprey_EST_Embryo Petromyzon ma...    44   5.3    1
(CO544321) LyEST12067 Sea lamprey LyEST Petromyzon marinus c...    44   5.3    1
(CI462532) Oryza sativa Japonica Group cDNA, clone: J07B5065...    44   5.3    1
(CI409241) Oryza sativa Japonica Group cDNA, clone: J06B5038...    44   5.3    1
(CI236239) Oryza sativa Japonica Group cDNA, clone: 041-M096...    44   5.3    1
(CI236115) Oryza sativa Japonica Group cDNA, clone: 041-M094...    44   5.3    1
(CI232770) Oryza sativa Japonica Group cDNA, clone: 041-M053...    44   5.3    1
(CI230647) Oryza sativa Japonica Group cDNA, clone: 041-M027...    44   5.3    1
(CI194631) Oryza sativa Japonica Group cDNA, clone: 036-M069...    44   5.3    1
(CI194025) Oryza sativa Japonica Group cDNA, clone: 036-M062...    44   5.3    1
(CI182703) Oryza sativa Japonica Group cDNA, clone: 035-M014...    44   5.3    1
(CI115064) Oryza sativa Japonica Group cDNA, clone: 022-M099...    44   5.3    1
(AW567698) si77g06.y1 Gm-c1031 Glycine max cDNA clone GENOME...    44   5.3    1
(AC115990) Homo sapiens chromosome 11, clone CTC-830E23, com...    40   5.7    2
(CZ732533) OC__Ba0063A17.f OC__Ba Oryza coarctata genomic cl...    34   6.8    2
(CZ806762) OC__Ba0180C08.f OC__Ba Oryza coarctata genomic cl...    34   7.1    2
(CZ806806) OC__Ba0180D07.f OC__Ba Oryza coarctata genomic cl...    34   7.5    2
(EJ917285) 1093018568172 Global-Ocean-Sampling_GS-30-02-01-1...    36   9.2    2
(DY891335) CeleSEQ8061 Cunninghamella elegans pBluescript (E...    36   9.2    2
(DY892449) CeleSEQ10686 Cunninghamella elegans pBluescript (...    36   9.2    2

>(BJ418734) Dictyostelium discoideum cDNA clone:ddv33f21, 5' end,
           single read.
          Length = 550

 Score =  712 bits (359), Expect(2) = 0.0
 Identities = 368/368 (100%)
 Strand = Plus / Plus


Query: 183 attcantagaaagaaatagtgcaacaatagcanaagaacaattacaaaatcaattattaa 242
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 183 attcantagaaagaaatagtgcaacaatagcanaagaacaattacaaaatcaattattaa 242


Query: 243 gttctattacaccaaaaacatcaattagaaagaaatctacatcatcggttgcaccagttg 302
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 243 gttctattacaccaaaaacatcaattagaaagaaatctacatcatcggttgcaccagttg 302


Query: 303 cattgacaaaggattatttatcacaatttagtgaagacgacagcatctgaatttacaact 362
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 303 cattgacaaaggattatttatcacaatttagtgaagacgacagcatctgaatttacaact 362


Query: 363 aaaggtgcaccaattaaaccatacaaattaacaaggaaaatgtcaaatcttagtaatagt 422
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 363 aaaggtgcaccaattaaaccatacaaattaacaaggaaaatgtcaaatcttagtaatagt 422


Query: 423 agtgctggtttaagtattgtttcatttagtcaattanatgttcacgattctgatttatta 482
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 423 agtgctggtttaagtattgtttcatttagtcaattanatgttcacgattctgatttatta 482


Query: 483 ttgtcaaattttaataaactctctgtagaacaacaagaacaaattcgtgcatcatcacct 542
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 483 ttgtcaaattttaataaactctctgtagaacaacaagaacaaattcgtgcatcatcacct 542


Query: 543 aataagca 550
           ||||||||
Sbjct: 543 aataagca 550

 Score = 61.9 bits (31), Expect(2) = 0.0
 Identities = 31/31 (100%)
 Strand = Plus / Plus


Query: 1  caaaaacaattagcattctagcaacaaccaa 31
          |||||||||||||||||||||||||||||||
Sbjct: 1  caaaaacaattagcattctagcaacaaccaa 31

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 466,207,328
Number of extensions: 26972403
Number of successful extensions: 2092131
Number of sequences better than 10.0: 67
Length of query: 559
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 536
Effective length of database: 93,106,754,628
Effective search space: 49905220480608
Effective search space used: 49905220480608
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7.12
Homology vs Protein 
Query= Contig-U14762-1 (Contig-U14762-1Q) /CSM_Contig/Contig-U14762-1Q.Seq.d
         (559 letters)

Database: nrp_B
           3,236,559 sequences; 1,051,180,864 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: 3236559
Number of Hits to DB: 553,298,741
Number of extensions: 8390257
Number of successful extensions: 14760
Number of sequences better than 10.0: 0
Number of HSP's gapped: 14758
Number of HSP's successfully gapped: 0
Length of query: 186
Length of database: 1,051,180,864
Length adjustment: 121
Effective length of query: 65
Effective length of database: 659,557,225
Effective search space: 42871219625
Effective search space used: 42871219625
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: 30 (16.2 bits)
PSORT 

 psg: 0.57  gvh: 0.35  alm: 0.56  top: 0.53  tms: 0.00  mit: 0.23  mip: 0.00
 nuc: 0.00  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 

	 32.0 %: cytoplasmic
	 28.0 %: nuclear
	 24.0 %: mitochondrial
	  8.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U14762-1 is cyt
VS (DIR, S) 0
VH (FL, L) 1
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0