Contig-U01743-1
Contig ID Contig-U01743-1
Contig update 2001. 8.29
Contig sequence
>Contig-U01743-1 (Contig-U01743-1Q) /CSM_Contig/Contig-U01743-1Q.Seq.d
TTTTAATATATATATATATATTTAACCCAAAAAAAAAAAAAAAAAAAAAA
TTAATAATAATAATAATTAAAAATTAAAAAAATTAAAAATAAATAAAAAA
TATATTAATTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAA

Gap no gap
Contig length 163
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 U01743
List of clone(s)

est1=SSG252Z,1,164
Translated Amino Acid sequence
fniyiyi*pkkkkkkkinnnnn*KLKKLKINKKYINLKKKKKKKKKKKKKKKKK


Translated Amino Acid sequence (All Frames)
Frame A:
f*yiyiyltqkkkkkkn*****lkikkiknk*kiy*fkkkkkkkkkkkkkkkkk


Frame B:
fniyiyi*pkkkkkkkinnnnn*KLKKLKINKKYINLKKKKKKKKKKKKKKKKK


Frame C:
liyiyifnpkkkkkkkliiiiikn*kn*k*iknili*kkkkkkkkkkkkkkkk


own update 2004. 6. 7
Homology vs CSM-cDNA
Query= Contig-U01743-1 (Contig-U01743-1Q)
/CSM_Contig/Contig-U01743-1Q.Seq.d
(163 letters)

Database: CSM
8361 sequences; 7,895,291 total letters


Score E
Sequences producing significant alignments: (bits) Value

Contig-U01743-1 (Contig-U01743-1Q) /CSM_Contig/Conti... 56 2e-08
Contig-U01680-1 (Contig-U01680-1Q) /CSM_Contig/Conti... 52 2e-07
Contig-U11498-1 (Contig-U11498-1Q) /CSM_Contig/Conti... 44 6e-05
Contig-U13046-1 (Contig-U13046-1Q) /CSM_Contig/Conti... 42 2e-04
Contig-U11451-1 (Contig-U11451-1Q) /CSM_Contig/Conti... 42 2e-04
Contig-U06839-1 (Contig-U06839-1Q) /CSM_Contig/Conti... 42 2e-04
Contig-U04517-1 (Contig-U04517-1Q) /CSM_Contig/Conti... 42 2e-04
Contig-U01756-1 (Contig-U01756-1Q) /CSM_Contig/Conti... 42 2e-04
Contig-U01001-1 (Contig-U01001-1Q) /CSM_Contig/Conti... 42 2e-04
Contig-U14036-1 (Contig-U14036-1Q) /CSM_Contig/Conti... 36 0.015

>Contig-U01743-1 (Contig-U01743-1Q) /CSM_Contig/Contig-U01743-1Q.Seq.d
Length = 163

Score = 56.0 bits (28), Expect = 2e-08
Identities = 28/28 (100%)
Strand = Plus / Plus


Query: 1 ttttaatatatatatatatatttaaccc 28
||||||||||||||||||||||||||||
Sbjct: 1 ttttaatatatatatatatatttaaccc 28


Score = 36.2 bits (18), Expect = 0.015
Identities = 18/18 (100%)
Strand = Plus / Minus


Query: 5 aatatatatatatatatt 22
||||||||||||||||||
Sbjct: 22 aatatatatatatatatt 5


>Contig-U01680-1 (Contig-U01680-1Q) /CSM_Contig/Contig-U01680-1Q.Seq.d
Length = 1102

Score = 52.0 bits (26), Expect = 2e-07
Identities = 26/26 (100%)
Strand = Plus / Plus


Query: 1 ttttaatatatatatatatatttaac 26
||||||||||||||||||||||||||
Sbjct: 823 ttttaatatatatatatatatttaac 848


Score = 36.2 bits (18), Expect = 0.015
Identities = 18/18 (100%)
Strand = Plus / Minus


Query: 5 aatatatatatatatatt 22
||||||||||||||||||
Sbjct: 844 aatatatatatatatatt 827


>Contig-U11498-1 (Contig-U11498-1Q) /CSM_Contig/Contig-U11498-1Q.Seq.d
Length = 4130

Score = 44.1 bits (22), Expect = 6e-05
Identities = 22/22 (100%)
Strand = Plus / Plus


Query: 4 taatatatatatatatatttaa 25
||||||||||||||||||||||
Sbjct: 4091 taatatatatatatatatttaa 4112


Score = 44.1 bits (22), Expect = 6e-05
Identities = 22/22 (100%)
Strand = Plus / Minus


Query: 4 taatatatatatatatatttaa 25
||||||||||||||||||||||
Sbjct: 3774 taatatatatatatatatttaa 3753


Score = 36.2 bits (18), Expect = 0.015
Identities = 18/18 (100%)
Strand = Plus / Minus


Query: 5 aatatatatatatatatt 22
||||||||||||||||||
Sbjct: 4109 aatatatatatatatatt 4092


Score = 36.2 bits (18), Expect = 0.015
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 5 aatatatatatatatatt 22
||||||||||||||||||
Sbjct: 3756 aatatatatatatatatt 3773


Score = 36.2 bits (18), Expect = 0.015
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 4 taatatatatatatatat 21
||||||||||||||||||
Sbjct: 3691 taatatatatatatatat 3708


Score = 34.2 bits (17), Expect = 0.059
Identities = 17/17 (100%)
Strand = Plus / Minus


Query: 6 atatatatatatatatt 22
|||||||||||||||||
Sbjct: 3708 atatatatatatatatt 3692


Database: CSM
Posted date: Jun 7, 2004 8:33 AM
Number of letters in database: 7,895,291
Number of sequences in database: 8361

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: 5456
Number of Sequences: 8361
Number of extensions: 5456
Number of successful extensions: 3637
Number of sequences better than 10.0: 406
length of query: 163
length of database: 7,895,291
effective HSP length: 15
effective length of query: 148
effective length of database: 7,769,876
effective search space: 1149941648
effective search space used: 1149941648
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. 5. 5
Homology vs DNA
Query= Contig-U01743-1 (Contig-U01743-1Q) /CSM_Contig/Contig-U01743-1Q.Seq.d
(163 letters)

Database: ddbj_A
102,105,510 sequences; 101,790,757,118 total letters

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

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

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 0
Number of sequences better than 10.0: 0
Length of query: 163
Length of database: 101,790,757,118
Length adjustment: 22
Effective length of query: 141
Effective length of database: 99,544,435,898
Effective search space: 14035765461618
Effective search space used: 14035765461618
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 7.18
Homology vs Protein
Query= Contig-U01743-1 (Contig-U01743-1Q) /CSM_Contig/Contig-U01743-1Q.Seq.d
(163 letters)

Database: nrp_B
3,236,559 sequences; 1,051,180,864 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: 3236559
Number of Hits to DB: 38,472,126
Number of extensions: 62423
Number of successful extensions: 8
Number of sequences better than 10.0: 0
Number of HSP's gapped: 8
Number of HSP's successfully gapped: 0
Length of query: 54
Length of database: 1,051,180,864
Length adjustment: 27
Effective length of query: 27
Effective length of database: 963,793,771
Effective search space: 26022431817
Effective search space used: 26022431817
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: 26 (14.6 bits)

PSORT

psg: 0.39 gvh: -0.06 alm: 0.81 top: 0.53 tms: 0.00 mit: 0.33 mip: 0.00
nuc: 1.61 erl: 0.00 erm: 0.80 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
20.0 %: cytoplasmic
4.0 %: cytoskeletal
4.0 %: mitochondrial

>> prediction for Contig-U01743-1 is nuc

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