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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
VSD670
Library VS
(Link to library)
Clone ID VSD670
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16270-1
Original site URL
Representative seq. ID VSD670F
(Link to Original site)
Representative DNA sequence 
>VSD670 (VSD670Q) /CSM/VS/VSD6-C/VSD670Q.Seq.d/
GACAGAATCGCCACCGAAGCTTCTGGTTTAGCCAAAAAGAAGAAGAGACAAACTTTACAC
TCAAGAGATATTCAAGTTGCCGTTCGTATCATTCTCACTGGTGAGTTAGCTAAACATGCC
ATCTTACAAGGTATGACTGCTGTCAACAAGTACAATCCAACTGAAAGCAAAAACTAAATT
GGTTCCAAATGAACTATATTCCTTAAAAAAATATAGTTTCCAATTTTCTTTTTTTTTTGT
ACTCTCTCTATCATTCTTTTTTAAAAAAAAAAAANTCAAAAAAAAAAXXXXXXXXXX
sequence update 2001. 3.22
Translated Amino Acid sequence 
DRIATEASGLAKKKKRQTLHSRDIQVAVRIILTGELAKHAILQGMTAVNKYNPTESKN*i
gsk*tiflkki*fpiffffctlsiilf*kkkxqkk---
Translated Amino Acid sequence (All Frames) 
Frame A:
DRIATEASGLAKKKKRQTLHSRDIQVAVRIILTGELAKHAILQGMTAVNKYNPTESKN*i
gsk*tiflkki*fpiffffctlsiilf*kkkxqkk---


Frame B:
tesppkllv*pkrrrdklytqeifklpfvsfslvs*lnmpsykv*llststiqlkaktkl
vpnelyslkkysfqfsfffvlslsfffkkkkxkkk---


Frame C:
qnrhrsfwfsqkeeetnftlkrysscrsyhshw*vs*tchltrydccqqvqsn*kqklnw
fqmnyip*knivsnflfflyslyhsflkkkxskk---
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSH159 (VSH159Q) /CSM/VS/VSH1-C/VSH159Q.Seq.d/                        418   e-116
VSF406 (VSF406Q) /CSM/VS/VSF4-A/VSF406Q.Seq.d/                        418   e-116
VSE878 (VSE878Q) /CSM/VS/VSE8-D/VSE878Q.Seq.d/                        418   e-116
VSE742 (VSE742Q) /CSM/VS/VSE7-B/VSE742Q.Seq.d/                        418   e-116
VSD670 (VSD670Q) /CSM/VS/VSD6-C/VSD670Q.Seq.d/                        418   e-116
VSB637 (VSB637Q) /CSM/VS/VSB6-B/VSB637Q.Seq.d/                        418   e-116
VSB542 (VSB542Q) /CSM/VS/VSB5-B/VSB542Q.Seq.d/                        418   e-116
VSB466 (VSB466Q) /CSM/VS/VSB4-C/VSB466Q.Seq.d/                        418   e-116
VSB150 (VSB150Q) /CSM/VS/VSB1-C/VSB150Q.Seq.d/                        418   e-116
VSA778 (VSA778Q) /CSM/VS/VSA7-D/VSA778Q.Seq.d/                        418   e-116
own update 2004.12.25
Homology vs DNA 

                                                               Score     E
Sequences producing significant alignments:                    (bits)  Value  N

BM111490|BM111490.1 EST559026 potato roots Solanum tuberosum cDNA clone cPRO11D7 5' end , mRNA sequence.    38  0.020  2
BG592519|BG592519.1 EST491197 cSTS Solanum tuberosum cDNA clone cSTS1H11 5' sequence, mRNA sequence.    38  0.024  2
BG599151|BG599151.1 EST504051 cSTS Solanum tuberosum cDNA clone cSTS23B13 5' sequence, mRNA sequence.    38  0.025  2
BI920756|BI920756.1 EST540679 potato microtubers, in vitro-grown Solanum tuberosum cDNA clone cSTE26I24 5' end, mRNA sequence.    38  0.025  2
AI775835|AI775835.1 EST256935 tomato resistant, Cornell Lycopersicon esculentum cDNA clone cLER16P21, mRNA sequence.    36  0.071  2
BI204754|BI204754.1 EST522794 cTOS Lycopersicon esculentum cDNA clone cTOS6A3 5' end, mRNA sequence.    36  0.078  2
AW623389|AW623389.1 EST321334 tomato flower buds 3-8 mm, Cornell University Lycopersicon esculentum cDNA clone cTOB10G7 5', mRNA sequence.    36  0.081  2
BI928103|BI928103.1 EST547992 tomato flower, 3 - 8 mm buds Lycopersicon esculentum cDNA clone cTOB24B17 5' end, mRNA sequence.    36  0.082  2
BG596673|BG596673.1 EST495351 cSTS Solanum tuberosum cDNA clone cSTS15I4 5' sequence, mRNA sequence.    36  0.082  2
AI482917|AI482917.1 EST242240 tomato shoot, Cornell Lycopersicon esculentum cDNA clone cLEB1N12, mRNA sequence.    36  0.083  2
dna update 2003. 8.22
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AM774337_2(AM774337|pid:none) Reporter vector pCH2B.                   65   1e-09
FM992690_367(FM992690|pid:none) Candida dubliniensis CD36 chromo...    64   1e-09
BC076088_1(BC076088|pid:none) Danio rerio zgc:92591, mRNA (cDNA ...    64   2e-09
FB334644_1(FB334644|pid:none) Sequence 2170 from Patent WO200711...    64   2e-09
AC024696_6(AC024696|pid:none) Caenorhabditis elegans cosmid F07B...    64   2e-09
FB334560_1(FB334560|pid:none) Sequence 2086 from Patent WO200711...    64   2e-09
M11494_2(M11494|pid:none) Yeast (S.pombe) histone H2A-alpha and ...    64   2e-09
(P04255) RecName: Full=Histone H2B 1;  &AF047656_5(AF047656|pid:...    64   2e-09
BC066243_1(BC066243|pid:none) Homo sapiens histone cluster 1, H2...    63   3e-09
(P02294) RecName: Full=Histone H2B.2;  &AY693063_1(AY693063|pid:...    63   3e-09
protein update 2009. 7.30
PSORT 

 psg: 0.75  gvh: 0.37  alm: 0.40  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.00
 nuc: 0.08  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 

	 40.0 %: cytoplasmic
	 28.0 %: nuclear
	 20.0 %: mitochondrial
	  8.0 %: vacuolar
	  4.0 %: peroxisomal

>> prediction for VSD670 is cyt
5' end seq. ID VSD670F
5' end seq. 
>VSD670F.Seq
GACAGAATCGCCACCGAAGCTTCTGGTTTAGCCAAAAAGAAGAAGAGACAAACTTTACAC
TCAAGAGATATTCAAGTTGCCGTTCGTATCATTCTCACTGGTGAGTTAGCTAAACATGCC
ATCTTACAAGGTATGACTGCTGTCAACAAGTACAATCCAACTGAAAGCAAAAACTAAATT
GGTTCCAAATGAACTATATTCCTTAAAAAAATATAGTTTCCAATTTTCTTTTTTTTTTGT
ACTCTCTCTATCATTCTTTTTTAAAAAAAAAAAANTCAAAAAAAAAA----------
Length of 5' end seq. 287
3' end seq. ID -
3' end seq. -
Length of 3' end seq. -
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -