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Dicty_cDB
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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
VSD267
Library VS
(Link to library)
Clone ID VSD267
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16278-1
Original site URL
Representative seq. ID VSD267P
(Link to Original site)
Representative DNA sequence 
>VSD267 (VSD267Q) /CSM/VS/VSD2-C/VSD267Q.Seq.d/
GTCCGGCTCCTCAAAATAAATGACGTAGGAGGTCAATTTAATAGAGTTTATTAGATTTTT
TAATTATTTAATAATCTAATTAAACTACTGTTGTTTAATTTTGAAATAAAAAAAAAAAAA
ACCCTNGTTTNTNTAAATAATAATAAATAAAATAATANTANTANTAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAANCCCNNAAAAAAAAXXX
XXXXXXXGNCCGGCTCCTCAAAANAAATGANGTAGGAGGTCAATTTAANAAAGTTTATTA
AATTTTTTNATTATTTAANA
sequence update 2001. 3.22
Translated Amino Acid sequence 
sgssk*mt*evnliefirffnylii*lnycclilk*kkkkpxfx*IIINKIIXXXKKKKK
KKKKKKKKKKKKKKXXKK---

---XRLLKXNXVGGQFXKVY*ifxlfx
Translated Amino Acid sequence (All Frames) 
Frame A:
vrllkindvggqfnrvy*if*lfnnliklllfnfeikkkktlvxxnnnk*nnxxxkkkkk
kkkkkkkkkkkkkkxpxkk---

---XRLLKXNXVGGQFXKVY*ifxlfx

Frame B:
sgssk*mt*evnliefirffnylii*lnycclilk*kkkkpxfx*IIINKIIXXXKKKKK
KKKKKKKKKKKKKKXXKK---

---xgsskxmx*evnlxkfikffxylx

Frame C:
papqnk*rrrsi**slldflii**sn*ttvv*f*nkkkknpxxxk***ik*xxx*kkkkk
kkkkkkkkkkkkkxpxkk---

---papqxk*xrrsi*xsllnfxii*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSD267 (VSD267Q) /CSM/VS/VSD2-C/VSD267Q.Seq.d/                        212   2e-54
VSE692 (VSE692Q) /CSM/VS/VSE6-D/VSE692Q.Seq.d/                        202   2e-51
SSM817 (SSM817Q) /CSM/SS/SSM8-A/SSM817Q.Seq.d/                        202   2e-51
SSM705 (SSM705Q) /CSM/SS/SSM7-A/SSM705Q.Seq.d/                        202   2e-51
SSL730 (SSL730Q) /CSM/SS/SSL7-B/SSL730Q.Seq.d/                        202   2e-51
SSL533 (SSL533Q) /CSM/SS/SSL5-B/SSL533Q.Seq.d/                        202   2e-51
SSL154 (SSL154Q) /CSM/SS/SSL1-C/SSL154Q.Seq.d/                        202   2e-51
SSL113 (SSL113Q) /CSM/SS/SSL1-A/SSL113Q.Seq.d/                        202   2e-51
SSL110 (SSL110Q) /CSM/SS/SSL1-A/SSL110Q.Seq.d/                        202   2e-51
SSK773 (SSK773Q) /CSM/SS/SSK7-D/SSK773Q.Seq.d/                        202   2e-51
own update 2001.11.12
Homology vs DNA 

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

AJ000063|AJ000063.1 Dictyostelium discoideum mRNA for ADP-ribosylation factor 1.   202  9e-53  2
AC112205|AC112205.2 Homo sapiens chromosome 5 clone RP11-80G7, complete sequence.    42  0.020  5
BX211256|BX211256.1 Danio rerio genomic clone DKEY-238C21, genomic survey sequence.    44  0.036  2
AY051365|AY051365.1 Polytrichadelphus longisetus isolate 246Plong tRNA-Thr (trnT) gene, partial sequence; trnT-trnL intergenic spacer, complete sequence; and tRNA-Leu (trnL) gene, partial sequence; chloroplast genes for chloroplast products.    40  0.047  2
AY051366|AY051366.1 Polytrichadelphus aristatus isolate 272Parist tRNA-Thr (trnT) gene, partial sequence; trnT-trnL intergenic spacer, complete sequence; and tRNA-Leu (trnL) gene, partial sequence; chloroplast genes for chloroplast products.    40  0.048  2
AY051367|AY051367.1 Polytrichadelphus umbrosus isolate 247Pumb tRNA-Thr (trnT) gene, partial sequence; trnT-trnL intergenic spacer, complete sequence; and tRNA-Leu (trnL) gene, partial sequence; chloroplast genes for chloroplast products.    40  0.050  2
AC011243|AC011243.8 Homo sapiens BAC clone RP11-491M19 from 2, complete sequence.    40  0.056  4
AC010385|AC010385.3 Homo sapiens chromosome 5 clone CTD-2269E23, complete sequence.    40  0.061  5
AC112731|AC112731.5 Rattus norvegicus clone CH230-74H2, WORKING DRAFT SEQUENCE, 3 unordered pieces.    48  0.065  1
BG177860|BG177860.1 602314268F1 NIH_MGC_85 Homo sapiens cDNA clone IMAGE:4419904 5', mRNA sequence.    48  0.065  1
dna update 2003. 8.21
Homology vs Protein 

 ***** 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: 3268448
Number of Hits to DB: 144,886,398
protein update 2009. 7.29
PSORT 

 psg: 0.03  gvh: 0.31  alm: 0.64  top: 0.53  tms: 0.00  mit: 0.40  mip: 0.00
 nuc: 1.85  erl: 0.00  erm: 0.20  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 

	 72.0 %: nuclear
	 12.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  8.0 %: mitochondrial

>> prediction for VSD267 is nuc
5' end seq. ID VSD267F
5' end seq. 
>VSD267F.Seq
GTCCGGCTCCTCAAAATAAATGACGTAGGAGGTCAATTTAATAGAGTTTATTAGATTTTT
TAATTATTTAATAATCTAATTAAACTACTGTTGTTTAATTTTGAAATAAAAAAAAAAAAA
ACCCTNGTTTNTNTAAATAATAATAAATAAAATAATANTANTANTAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAANCCCNNAAAAAAAA---
-------
Length of 5' end seq. 237
3' end seq. ID VSD267Z
3' end seq. 
>VSD267Z.Seq
----------GNCCGGCTCCTCAAAANAAATGANGTAGGAGGTCAATTTAANAAAGTTTA
TTAAATTTTTTNATTATTTAANA
Length of 3' end seq. 73
Connected seq. ID VSD267P
Connected seq. 
>VSD267P.Seq
GTCCGGCTCCTCAAAATAAATGACGTAGGAGGTCAATTTAATAGAGTTTATTAGATTTTT
TAATTATTTAATAATCTAATTAAACTACTGTTGTTTAATTTTGAAATAAAAAAAAAAAAA
ACCCTNGTTTNTNTAAATAATAATAAATAAAATAATANTANTANTAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAANCCCNNAAAAAAAA---
-------GNCCGGCTCCTCAAAANAAATGANGTAGGAGGTCAATTTAANAAAGTTTATTA
AATTTTTTNATTATTTAANA
Length of connected seq. 310
Full length Seq ID -
Full length Seq. -
Length of full length seq. -