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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
VSG120
Library VS
(Link to library)
Clone ID VSG120
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U06767-1
Original site URL
Representative seq. ID VSG120F
(Link to Original site)
Representative DNA sequence 
>VSG120 (VSG120Q) /CSM/VS/VSG1-A/VSG120Q.Seq.d/
GGAAGAGCGAAGGTTATATAACAGTCGAGAAGGTAATTAATGAAATTAAATTAAAAGAAA
TAAAAAAAAATAATAAAAATCTAAAGAACAAATAAAAAAAAATGAATTGATTAAGAAATC
AATAAAAACAAATTAAAAACAACAAATAAAAAAAAANTANTTAAAGAAATAAAAAAAANT
AAAAAAAAACCCTXXXXXXXXXX
sequence update 2001. 3.22
Translated Amino Acid sequence 
KSEGYITVEKVINEIKLKEIKKNNKNLKNK*kkmn*lrnq*kqiknnk*kkxx*rnkkx*
kkt---
Translated Amino Acid sequence (All Frames) 
Frame A:
grakvi*qsrr*lmkln*kk*kkiiki*rtnkkk*id*einknklkttnkkkxxkeikkx
kkkp---


Frame B:
eerrlynsregn**n*ikrnkkk**kskeqikknelikksiktn*kqqikkxxlkk*kkx
kkn---


Frame C:
KSEGYITVEKVINEIKLKEIKKNNKNLKNK*kkmn*lrnq*kqiknnk*kkxx*rnkkx*
kkt---
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSG120 (VSG120Q) /CSM/VS/VSG1-A/VSG120Q.Seq.d/                         66   2e-10
VFF106 (VFF106Q) /CSM/VF/VFF1-A/VFF106Q.Seq.d/                         64   8e-10
VSG208 (VSG208Q) /CSM/VS/VSG2-A/VSG208Q.Seq.d/                         54   8e-07
VSI861 (VSI861Q) /CSM/VS/VSI8-C/VSI861Q.Seq.d/                         52   3e-06
SLD529 (SLD529Q) /CSM/SL/SLD5-B/SLD529Q.Seq.d/                         34   0.75
own update 2001.11.13
Homology vs DNA 

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

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Hits to DB: 197716
Number of Sequences: 25389017
Number of extensions: 197716
Number of successful extensions: 47119
Number of sequences better than 10.0: 0
length of query: 203
length of database: P,810,035,882
effective HSP length: 22
effective length of query: 181
effective length of database: P,251,477,508
effective search space: 5837517428948
effective search space used: 5837517428948
T: 0
A: 0
X1: 6 (11.9 bits)
X2: 10 (19.8 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)

ANTI-DNA BLAST search was processed by blast@nig.ac.jp, National Institute of Genetics, Japan.







Dictyostelium discoideum cDNA Project Home
dna update 2003. 8.24
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: 3019103
Number of Hits to DB: 69,867,337
protein update 2009. 3.22
PSORT 

 psg: 0.56  gvh: 0.06  alm: 0.58  top: 0.53  tms: 0.00  mit: 0.14  mip: 0.00
 nuc: 0.24  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 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for VSG120 is nuc
5' end seq. ID VSG120F
5' end seq. 
>VSG120F.Seq
GGAAGAGCGAAGGTTATATAACAGTCGAGAAGGTAATTAATGAAATTAAATTAAAAGAAA
TAAAAAAAAATAATAAAAATCTAAAGAACAAATAAAAAAAAATGAATTGATTAAGAAATC
AATAAAAACAAATTAAAAACAACAAATAAAAAAAAANTANTTAAAGAAATAAAAAAAANT
AAAAAAAAACCCT----------
Length of 5' end seq. 193
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. -