Contig-U10494-1
Contig ID Contig-U10494-1
Contig update 2002. 9.13
Contig sequence
>Contig-U10494-1 (Contig-U10494-1Q) /CSM_Contig/Contig-U10494-1Q.Seq.d
NNNNNNNNNNAANTNAAAAAAATTCCCNAAAAAACCNATCCCNCCAANTT
TTTTAAAAAATNAAAACCNAAAAAAATTTTTTTTTTTTTTTTTTTTTTTT
TTCTTATTAAATAAAAATAAAAATAAAAATTTAG

Gap no gap
Contig length 134
Chromosome number (1..6, M) -
Chromosome length -
Start point -
End point -
Strand (PLUS/MINUS) -
Number of clones 1
Number of EST 1
Link to clone list U10494
List of clone(s)

est1=VFM414Z,1,125
Translated Amino Acid sequence
XXXXXKKFPKKPIPPXFLKNXNXKKFFFFFFFFFLLNKNKNKNL


Translated Amino Acid sequence (All Frames)
Frame A:
xxxxxkkipxktxpxxffkkxkpkkifffffffflik*k*k*kf


Frame B:
XXXXXKKFPKKPIPPXFLKNXNXKKFFFFFFFFFLLNKNKNKNL


Frame C:
xxxxxknsxknxsxqxf*kxktxknffffffffsy*ikikiki*


own update ----------
Homology vs CSM-cDNA -
dna update 2008.11.20
Homology vs DNA
Query= Contig-U10494-1 (Contig-U10494-1Q) /CSM_Contig/Contig-U10494-1Q.Seq.d
(134 letters)

Database: ddbj_A
92,845,959 sequences; 95,242,211,685 total letters

Searching..................................................done

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

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 0
Number of sequences better than 10.0: 0
Length of query: 134
Length of database: 95,242,211,685
Length adjustment: 22
Effective length of query: 112
Effective length of database: 93,199,600,587
Effective search space: 10438355265744
Effective search space used: 10438355265744
X1: 11 (21.8 bits)
S2: 20 (40.1 bits)

protein update 2009. 6.28
Homology vs Protein
Query= Contig-U10494-1 (Contig-U10494-1Q) /CSM_Contig/Contig-U10494-1Q.Seq.d
(134 letters)

Database: nrp_A
3,204,285 sequences; 1,040,966,779 total letters

Searching..................................................done

***** 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: 3204285
Number of Hits to DB: 34,852,524
Number of extensions: 116223
Number of successful extensions: 44
Number of sequences better than 10.0: 0
Number of HSP's gapped: 44
Number of HSP's successfully gapped: 0
Length of query: 44
Length of database: 1,040,966,779
Length adjustment: 18
Effective length of query: 26
Effective length of database: 983,289,649
Effective search space: 25565530874
Effective search space used: 25565530874
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 25 (14.2 bits)

PSORT

psg: 0.76 gvh: 0.42 alm: 0.45 top: 0.53 tms: 0.00 mit: 0.46 mip: 0.00
nuc: 0.12 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

48.0 %: mitochondrial
24.0 %: cytoplasmic
24.0 %: nuclear
4.0 %: cytoskeletal

>> prediction for Contig-U10494-1 is mit

VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 1
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0