Contig-U07028-1
Contig ID Contig-U07028-1
Contig update 2001. 8.30
Contig sequence
>Contig-U07028-1 (Contig-U07028-1Q) /CSM_Contig/Contig-U07028-1Q.Seq.d
TTTTTTTTTTTTTTCCCCCCNNCCCNNAAAAAAAAAAANTTTTTTTTTTT
TTTTNNAAAAATTTTTTTTTTTTTTTTTTTTTNAAANCCAAANTTTTTTT
TTTAA

Gap no gap
Contig length 105
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 U07028
List of clone(s)

est1=VSJ690Z,1,106
Translated Amino Acid sequence
FFFFFPPXXKKKXFFFFFXKIFFFFFFXXPXFFF*


Translated Amino Acid sequence (All Frames)
Frame A:
FFFFFPPXXKKKXFFFFFXKIFFFFFFXXPXFFF*


Frame B:
ffffspxpxkkkxffffxxkfffffffxxqxfff


Frame C:
ffffppxpxkkkxffffxknffffffxkxkxffl


own update ----------
Homology vs CSM-cDNA -
dna update 2008.11.11
Homology vs DNA
Query= Contig-U07028-1 (Contig-U07028-1Q) /CSM_Contig/Contig-U07028-1Q.Seq.d
(105 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: 105
Length of database: 95,242,211,685
Length adjustment: 22
Effective length of query: 83
Effective length of database: 93,199,600,587
Effective search space: 7735566848721
Effective search space used: 7735566848721
X1: 11 (21.8 bits)
S2: 20 (40.1 bits)

protein update 2009. 6.23
Homology vs Protein
Query= Contig-U07028-1 (Contig-U07028-1Q) /CSM_Contig/Contig-U07028-1Q.Seq.d
(105 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: 16,615,949
Number of extensions: 41338
Number of sequences better than 10.0: 0
Number of HSP's gapped: 0
Number of HSP's successfully gapped: 0
Length of query: 35
Length of database: 1,040,966,779
Length adjustment: 9
Effective length of query: 26
Effective length of database: 1,012,128,214
Effective search space: 26315333564
Effective search space used: 26315333564
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: 24 (13.9 bits)

PSORT

psg: 0.86 gvh: 0.40 alm: 0.33 top: 0.73 tms: 0.00 mit: 0.31 mip: 0.00
nuc: 0.08 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 %: cytoplasmic
28.0 %: nuclear
16.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: plasma membrane

>> prediction for Contig-U07028-1 is cyt

VS (DIR, S) 1
VH (FL, L) 0
VF (FL, S) 0
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