Contig-U05428-1
Contig ID Contig-U05428-1
Contig update 2001. 8.29
Contig sequence
>Contig-U05428-1 (Contig-U05428-1Q) /CSM_Contig/Contig-U05428-1Q.Seq.d
GGAAAAAAAAAAAAAAAAAAAAACTATATAAATAAAAAAAAAAATAATAA
ATAAACATTACCATTAAATAAAAGCAAATAAAAAAAATAACCTTTCAATA
ACAACAATAATAACAATAATTATAATAATATATTAAAACTTTATATTTTT
CATAAAACTTTCTCAACTTTTCGTTTTTCATTTTTTCATTTTTTAATTTT
TTAGAACAATTTTTTTTTTTATTTTTTATTTTTTTTATTTCCCAACACAC
AAAA

Gap no gap
Contig length 254
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 7798372
End point 7798116
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U05428
List of clone(s)

est1=SSI313E,1,255
Translated Amino Acid sequence
gkkkkkknyinkkknnk*tlplnksk*kk*PFNNNNNNNNYNNILKLYIFHKTFSTFRFS
FFHFLIF*nnfffyflfflfpntq


Translated Amino Acid sequence (All Frames)
Frame A:
gkkkkkknyinkkknnk*tlplnksk*kk*PFNNNNNNNNYNNILKLYIFHKTFSTFRFS
FFHFLIF*nnfffyflfflfpntq


Frame B:
ekkkkkkti*ikkkiinkhyh*ikankknnlsittiitiiiiiy*nfiffiklsqlfvfh
ffif*ffrtifffifyffyfpthk


Frame C:
kkkkkkklyk*kkk**initik*kqikkitfq*qq**q*l**yiktlyfs*nflnfsffi
fsffnfleqffflffiffisqhtk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U05428-1 (Contig-U05428-1Q)
/CSM_Contig/Contig-U05428-1Q.Seq.d
(254 letters)

Database: CSM
6905 sequences; 5,674,871 total letters


Score E
Sequences producing significant alignments: (bits) Value

Contig-U05428-1 (Contig-U05428-1Q) /CSM_Contig/Conti... 36 0.017

>Contig-U05428-1 (Contig-U05428-1Q) /CSM_Contig/Contig-U05428-1Q.Seq.d
Length = 254

Score = 36.2 bits (18), Expect = 0.017
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 237 atttcccaacacacaaaa 254
||||||||||||||||||
Sbjct: 237 atttcccaacacacaaaa 254


Score = 34.2 bits (17), Expect = 0.068
Identities = 17/17 (100%)
Strand = Plus / Plus


Query: 151 cataaaactttctcaac 167
|||||||||||||||||
Sbjct: 151 cataaaactttctcaac 167


Database: CSM
Posted date: Jun 9, 2004 7:35 PM
Number of letters in database: 5,674,871
Number of sequences in database: 6905

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: 126
Number of Sequences: 6905
Number of extensions: 126
Number of successful extensions: 42
Number of sequences better than 10.0: 1
length of query: 254
length of database: 5,674,871
effective HSP length: 15
effective length of query: 239
effective length of database: 5,571,296
effective search space: 1331539744
effective search space used: 1331539744
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 14 (28.2 bits)
dna update 2009. 7.20
Homology vs DNA
Query= Contig-U05428-1 (Contig-U05428-1Q) /CSM_Contig/Contig-U05428-1Q.Seq.d
(254 letters)

Database: ddbj_B
105,743,758 sequences; 104,622,809,269 total letters

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

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

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 105743758
Number of Hits to DB: 12,136,508
Number of extensions: 1064701
Number of successful extensions: 104445
Number of sequences better than 10.0: 0
Length of query: 254
Length of database: 104,622,809,269
Length adjustment: 23
Effective length of query: 231
Effective length of database: 102,190,702,835
Effective search space: 23606052354885
Effective search space used: 23606052354885
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 8. 1
Homology vs Protein
Query= Contig-U05428-1 (Contig-U05428-1Q) /CSM_Contig/Contig-U05428-1Q.Seq.d
(254 letters)

Database: nrp_A
3,268,448 sequences; 1,061,185,681 total letters

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

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

Lambda K H
0.311 0.139 0.440

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: 33,289,355
Number of extensions: 33231
Number of sequences better than 10.0: 0
Number of HSP's gapped: 0
Number of HSP's successfully gapped: 0
Length of query: 84
Length of database: 1,061,185,681
Length adjustment: 54
Effective length of query: 30
Effective length of database: 884,689,489
Effective search space: 26540684670
Effective search space used: 26540684670
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.3 bits)
S2: 27 (15.0 bits)

PSORT

psg: 0.56 gvh: 0.38 alm: 0.51 top: 0.53 tms: 0.00 mit: 0.43 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

52.0 %: mitochondrial
28.0 %: nuclear
12.0 %: cytoplasmic
4.0 %: cytoskeletal
4.0 %: vesicles of secretory system

>> prediction for Contig-U05428-1 is mit

VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 1
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