VSD170
Library VS
(Link to library)
Clone ID VSD170
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U06509-1
Original site URL
Representative seq. ID VSD170F
(Link to Original site)
Representative DNA sequence
>VSD170 (VSD170Q) /CSM/VS/VSD1-C/VSD170Q.Seq.d/
AATTTTTAAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATA
ATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAAAATAT
ATCTTTTTTTTTTTXXXXXXXXXX
sequence update 2001. 3.22
Translated Amino Acid sequence
FLNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNKIYLFF---


Translated Amino Acid sequence (All Frames)
Frame A:
nf*iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiikyifff---


Frame B:
ifk***********************************nisfff---


Frame C:
FLNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNKIYLFF---


Homology vs CSM-cDNA

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

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: 0
Number of Sequences: 97611
Number of extensions: 0
Number of successful extensions: 0
Number of sequences better than 10.0: 0
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 0
length of query: 144
length of database: 80,480,566
effective HSP length: 17
effective length of query: 127
effective length of database: 78,821,179
effective search space: 10010289733
effective search space used: 10010289733
T: 0
A: 0
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)








Dictyostelium discoideum cDNA Project Home



own update 2009. 4. 4
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: 0
Number of Sequences: 25378875
Number of extensions: 0
Number of successful extensions: 0
Number of sequences better than 10.0: 0
length of query: 144
length of database: P,794,892,705
effective HSP length: 21
effective length of query: 123
effective length of database: P,261,936,330
effective search space: 3968218168590
effective search space used: 3968218168590
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. 8.21
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: 34,907,611
protein update 2009. 7.29
PSORT

psg: 0.52 gvh: -0.28 alm: 0.88 top: 0.53 tms: 0.00 mit: 0.36 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

48.0 %: nuclear
32.0 %: cytoplasmic
12.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: plasma membrane

>> prediction for VSD170 is nuc

5' end seq. ID VSD170F
5' end seq.
>VSD170F.Seq
AATTTTTAAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATA
ATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAAAATAT
ATCTTTTTTTTTTT----------
Length of 5' end seq. 134
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. -