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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
VSC728
Library VS
(Link to library)
Clone ID VSC728
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U08358-1
Original site URL
Representative seq. ID VSC728E
(Link to Original site)
Representative DNA sequence 
>VSC728 (VSC728Q) /CSM/VS/VSC7-B/VSC728Q.Seq.d/
TCATACTAGCGTGGTAAAGCTTCGATGTAAGAAAACGAGGTGAAAAAGGGTATCTTATAT
TATTCTAATCTATTTATTATTTTTACATTTTTGACGTAGATAGTGTTAGAAACTAAAATT
CGTTAGTTATTTGGATCTTCTTGAAAAAGTTGTTAGAAATTTTTGGATGTTGTTAATAGA
TATTAATAAAGGTCTTGAAAAAGGGAATGTAAAAGGATCTAAACTACATACCTTAAGTGA
CTGTTATGAGAGTTCGGATAAAAAATTCTTTAGTAGTTATAAATTTTTTTTAACGACGAT
ATTTAAAAGGAAATTAAAAAGAACTAAACGTAGTAGTAGTAGTAGTAGTAGTATAAAACC
ACCCACTCATTTAGTAATTCTTTATTTTAGGATTTAAATTTCAAGGTATTTAAATGCGTG
AAAATAAAGAAAAAATAAAATGTATAGAAATAGAAAAAAATAAATAAAAAA
sequence update 2000.10.12
Translated Amino Acid sequence 
htsvvklrckktr*krvsyiiliyllflhf*rr*c*KLKFVSYLDLLEKVVRNFWMLLID
INKGLEKGNVKGSKLHTLSDCYESSDKKFFSSYKFFLTTIFKRKLKRTKRSSSSSSSIKP
PTHLVILYFRI*isrylna*k*rknkmyrnrkk*ik
Translated Amino Acid sequence (All Frames) 
Frame A:
sy*rgkasm*enevkkgilyysnlfiiftflt*ivletkir*lfgss*ksc*kfldvvnr
y**rs*kreckri*ttylk*ll*efg*kil**l*iffnddi*keikkn*t*******ykt
thsfsnslf*dlnfkvfkcvkikkk*nv*k*kkinkk


Frame B:
htsvvklrckktr*krvsyiiliyllflhf*rr*c*KLKFVSYLDLLEKVVRNFWMLLID
INKGLEKGNVKGSKLHTLSDCYESSDKKFFSSYKFFLTTIFKRKLKRTKRSSSSSSSIKP
PTHLVILYFRI*isrylna*k*rknkmyrnrkk*ik


Frame C:
ilaw*sfdvrkrgekgylilf*siyyfyifdvdsvrn*nslviwiflkklleifgcc**i
likvlkkgm*kdlnyip*vtvmrvriknslvvinff*rrylkgn*kelnvvvvvvvv*nh
pli**ffilgfkfqgi*mrenkekikcieieknk*k
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSK230 (VSK230Q) /CSM/VS/VSK2-B/VSK230Q.Seq.d/                        605   e-172
VSK211 (VSK211Q) /CSM/VS/VSK2-A/VSK211Q.Seq.d/                        605   e-172
VSK210 (VSK210Q) /CSM/VS/VSK2-A/VSK210Q.Seq.d/                        605   e-172
VSJ773 (VSJ773Q) /CSM/VS/VSJ7-D/VSJ773Q.Seq.d/                        605   e-172
VSJ474 (VSJ474Q) /CSM/VS/VSJ4-D/VSJ474Q.Seq.d/                        605   e-172
VSJ255 (VSJ255Q) /CSM/VS/VSJ2-C/VSJ255Q.Seq.d/                        605   e-172
VSJ162 (VSJ162Q) /CSM/VS/VSJ1-C/VSJ162Q.Seq.d/                        605   e-172
VSI771 (VSI771Q) /CSM/VS/VSI7-C/VSI771Q.Seq.d/                        605   e-172
VSI642 (VSI642Q) /CSM/VS/VSI6-B/VSI642Q.Seq.d/                        605   e-172
VSI538 (VSI538Q) /CSM/VS/VSI5-B/VSI538Q.Seq.d/                        605   e-172
own update 2001.11.12
Homology vs DNA 

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

D16466|D16466.1 Dictyostelium discoideum mitochondrial DNA.      561  0.0  3
AB000109|AB000109.1 Dictyostelium discoideum mitochondrial DNA, complete sequence.   561  0.0  3
AF020409|AF020409.1 Dictyostelium discoideum DocA (docA) mRNA, complete cds.   131  8e-27  1
BH559284|BH559284.1 BOGXH07TR BOGX Brassica oleracea genomic clone BOGXH07, DNA sequence.    52  0.006  1
BZ070379|BZ070379.1 lkg25g08.b1 B.oleracea002 Brassica oleracea genomic, DNA sequence.    42  0.077  2
BE156339|BE156339.1 QV0-HT0367-210400-203-b08 HT0367 Homo sapiens cDNA, mRNA sequence.    48  0.098  1
AF177764|AF177764.1 Homo sapiens phospholamban gene, exon 2 and complete cds.    48  0.098  1
AC094647|AC094647.6 Rattus norvegicus clone CH230-4N1, WORKING DRAFT SEQUENCE, 7 unordered pieces.    46  0.39  1
BI749285|BI749285.1 ro76c02.y1 Heterodera glycines J2 pAMP1 v8 Chiapelli McCarter Heterodera glycines cDNA 5' similar to TR:Q9T6M3 Q9T6M3 NADH-UBIQUINONE OXIDOREDUCTASE SUBUNIT 4. ;, mRNA sequence.    32  0.40  3
AC013809|AC013809.4 Homo sapiens clone RP11-21C18, LOW-PASS SEQUENCE SAMPLING.    48  0.79  5
dna update 2003. 9.13
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: 497,177,973
protein update 2009. 7.29
PSORT 

 psg: 0.51  gvh: 0.29  alm: 0.46  top: 0.53  tms: 0.00  mit: 0.17  mip: 0.00
 nuc: 0.12  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 

	 64.0 %: nuclear
	 16.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: vacuolar
	  4.0 %: plasma membrane
	  4.0 %: vesicles of secretory system

>> prediction for VSC728 is nuc
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
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 VSC728E
Full length Seq. 
>VSC728E.Seq
TCATACTAGCGTGGTAAAGCTTCGATGTAAGAAAACGAGGTGAAAAAGGGTATCTTATAT
TATTCTAATCTATTTATTATTTTTACATTTTTGACGTAGATAGTGTTAGAAACTAAAATT
CGTTAGTTATTTGGATCTTCTTGAAAAAGTTGTTAGAAATTTTTGGATGTTGTTAATAGA
TATTAATAAAGGTCTTGAAAAAGGGAATGTAAAAGGATCTAAACTACATACCTTAAGTGA
CTGTTATGAGAGTTCGGATAAAAAATTCTTTAGTAGTTATAAATTTTTTTTAACGACGAT
ATTTAAAAGGAAATTAAAAAGAACTAAACGTAGTAGTAGTAGTAGTAGTAGTATAAAACC
ACCCACTCATTTAGTAATTCTTTATTTTAGGATTTAAATTTCAAGGTATTTAAATGCGTG
AAAATAAAGAAAAAATAAAATGTATAGAAATAGAAAAAAATAAATAAAAAA
Length of full length seq. 471