Contig-U14610-1
Contig ID Contig-U14610-1
Contig update 2002.12.18
Contig sequence
>Contig-U14610-1 (Contig-U14610-1Q) /CSM_Contig/Contig-U14610-1Q.Seq.d
TTGNCNTTANTTTTANGCCNGNANGGAANTGTTANTTTTGCTTTAAAAAN
TGNGGAATTCCNNGANCNCTNTTGGCCNACTGGAATAGTTAAAAAATAAA
TAAATAAATAAATAATAAAATTAAAAAAATTAAAAAAATTAAAAAAATTA
AAAAAAATAAAAAATAAAAAAAAAAAATAATAAATAAAAAAAAAANTATT
AAAAAAAAAA

Gap no gap
Contig length 210
Chromosome number (1..6, M) -
Chromosome length -
Start point -
End point -
Strand (PLUS/MINUS) -
Number of clones 1
Number of EST 2
Link to clone list U14610
List of clone(s)

est1=SHH358Z,-3,197
est2=SHH358F,84,210
Translated Amino Acid sequence
LXLXLXXXGXVXFALKXXEFXXXXWPTGIVKK*ink*iiklkklkklkklkkiknkkkk*
*ikkkxlkkk


Translated Amino Acid sequence (All Frames)
Frame A:
LXLXLXXXGXVXFALKXXEFXXXXWPTGIVKK*ink*iiklkklkklkklkkiknkkkk*
*ikkkxlkkk


Frame B:
xxxfxaxxexlxll*kxxnsxxxxgxle*lknk*ink**n*kn*kn*kn*kk*kikkknn
k*kkxy*kk


Frame C:
xxxfxpxxxcxfcfkxxgipxxllaxwns*kink*innkikkikkikkikknkk*kkkii
nkkkxikkk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U14610-1 (Contig-U14610-1Q)
/CSM_Contig/Contig-U14610-1Q.Seq.d
(210 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U14610-1 (Contig-U14610-1Q) /CSM_Contig/Conti... 76 2e-14
Contig-U12363-1 (Contig-U12363-1Q) /CSM_Contig/Conti... 30 0.86

>Contig-U14610-1 (Contig-U14610-1Q) /CSM_Contig/Contig-U14610-1Q.Seq.d
Length = 210

Score = 75.8 bits (38), Expect = 2e-14
Identities = 83/83 (100%)
Strand = Plus / Plus


Query: 7 ttanttttangccngnanggaantgttanttttgctttaaaaantgnggaattccnngan 66
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7 ttanttttangccngnanggaantgttanttttgctttaaaaantgnggaattccnngan 66


Query: 67 cnctnttggccnactggaatagt 89
|||||||||||||||||||||||
Sbjct: 67 cnctnttggccnactggaatagt 89


>Contig-U12363-1 (Contig-U12363-1Q) /CSM_Contig/Contig-U12363-1Q.Seq.d
Length = 1167

Score = 30.2 bits (15), Expect = 0.86
Identities = 17/18 (94%)
Strand = Plus / Minus


Query: 32 ttanttttgctttaaaaa 49
||| ||||||||||||||
Sbjct: 43 ttaattttgctttaaaaa 26


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: 82
Number of Sequences: 6905
Number of extensions: 82
Number of successful extensions: 23
Number of sequences better than 10.0: 2
length of query: 210
length of database: 5,674,871
effective HSP length: 15
effective length of query: 195
effective length of database: 5,571,296
effective search space: 1086402720
effective search space used: 1086402720
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 2008.12.27
Homology vs DNA
Query= Contig-U14610-1 (Contig-U14610-1Q) /CSM_Contig/Contig-U14610-1Q.Seq.d
(210 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value N

(BJ407427) Dictyostelium discoideum cDNA clone:dds38d15, 3' ... 76 5e-10 1
(BB898156) Macaca fascicularis cDNA clone: Qlv-U220A-B10, 3'... 66 5e-07 1
(BJ996624) Homo sapiens cDNA, clone:hyst-1915, 3'end. 58 1e-04 1
(BJ994488) Homo sapiens cDNA, clone:hmft-0421, 3'end. 58 1e-04 1
(BJ995391) Homo sapiens cDNA, clone:hmft-2421, 3'end. 56 5e-04 1
(BD021499) Novel gene and novel gene fragment cloned in huma... 54 0.002 1
(BD101437) Novel genes cloned in humanneuroblastoma and frag... 50 0.030 1
(BJ995833) Homo sapiens cDNA, clone:hyst-0005, 3'end. 50 0.030 1
(BJ995813) Homo sapiens cDNA, clone:hmft-3252, 3'end. 50 0.030 1
(BD101193) Novel genes cloned in humanneuroblastoma and frag... 44 1.8 1

>(BJ407427) Dictyostelium discoideum cDNA clone:dds38d15, 3' end,
single read.
Length = 201

Score = 75.8 bits (38), Expect = 5e-10
Identities = 83/83 (100%)
Strand = Plus / Minus


Query: 7 ttanttttangccngnanggaantgttanttttgctttaaaaantgnggaattccnngan 66
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 191 ttanttttangccngnanggaantgttanttttgctttaaaaantgnggaattccnngan 132


Query: 67 cnctnttggccnactggaatagt 89
|||||||||||||||||||||||
Sbjct: 131 cnctnttggccnactggaatagt 109

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 24,973,636
Number of extensions: 1345682
Number of successful extensions: 245334
Number of sequences better than 10.0: 12
Length of query: 210
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 187
Effective length of database: 93,106,754,628
Effective search space: 17410963115436
Effective search space used: 17410963115436
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 7.12
Homology vs Protein
Query= Contig-U14610-1 (Contig-U14610-1Q) /CSM_Contig/Contig-U14610-1Q.Seq.d
(210 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: 48,532,511
Number of extensions: 1371551
Number of successful extensions: 67
Number of sequences better than 10.0: 0
Number of HSP's gapped: 67
Number of HSP's successfully gapped: 0
Length of query: 70
Length of database: 1,051,180,864
Length adjustment: 41
Effective length of query: 29
Effective length of database: 918,481,945
Effective search space: 26635976405
Effective search space used: 26635976405
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: 0.88 gvh: 0.58 alm: 0.46 top: 0.47 tms: 0.00 mit: 0.21 mip: 0.00
nuc: 0.00 erl: 0.00 erm: 0.20 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
12.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: peroxisomal
4.0 %: endoplasmic reticulum

>> prediction for Contig-U14610-1 is cyt

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) 0
SH (FL, L) 1
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0