Contig-U08414-1
Contig ID Contig-U08414-1
Contig update 2002. 9.13
Contig sequence
>Contig-U08414-1 (Contig-U08414-1Q) /CSM_Contig/Contig-U08414-1Q.Seq.d
NNNNNNNNNNGAAATTAGGAAGTGCACCTTTGATAAATCAATTCTAAANN
CNGTCGTTGNATTATCTACAACTTTTCTTTCNCCNACTGTTGAATTAACC
GTNCAACTCAATAATGATGATTCTTCAACTCATACCANNTCAATCGATAA
TGGTGTAAGTGGTATTTCAAAAGCATGNTNCCTTTTAAATNNAATTTTCA
NAGCTTCTCCCGACACTANAGGATTTGCNATTNNATGTGGTACTNGGGAT
GGTNNAANTGGTTTAATTAAAGCTTTNAATAAAAN

Gap no gap
Contig length 285
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 U08414
List of clone(s)

est1=SFH649Z,1,276
Translated Amino Acid sequence
XXXEIRKCTFDKSILXXVVXLSTTFLSPTVELTVQLNNDDSSTHTXSIDNGVSGISKAXX
LLNXIFXASPDTXGFAIXCGTXDGXXGLIKAXNK


Translated Amino Acid sequence (All Frames)
Frame A:
xxxxn*evhl**inskxxrxiiynfsfxxc*inrxtq***ffnsyxxnr*wckwyfksmx
pfkxnfxsfsrhxricxxmwyxgwxxwfn*sfx*x


Frame B:
XXXEIRKCTFDKSILXXVVXLSTTFLSPTVELTVQLNNDDSSTHTXSIDNGVSGISKAXX
LLNXIFXASPDTXGFAIXCGTXDGXXGLIKAXNK


Frame C:
xxxklgsaplinqf*xxslxylqlffxxlln*pxnsimmilqlipxqsimv*vvfqkhxx
f*xxfsxllptlxdlxxxvvlgmvxxv*lklxik


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U08414-1 (Contig-U08414-1Q)
/CSM_Contig/Contig-U08414-1Q.Seq.d
(285 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U08414-1 (Contig-U08414-1Q) /CSM_Contig/Conti... 406 e-114
Contig-U11813-1 (Contig-U11813-1Q) /CSM_Contig/Conti... 32 0.30
Contig-U10985-1 (Contig-U10985-1Q) /CSM_Contig/Conti... 32 0.30
Contig-U06281-1 (Contig-U06281-1Q) /CSM_Contig/Conti... 32 0.30
Contig-U03197-1 (Contig-U03197-1Q) /CSM_Contig/Conti... 32 0.30
Contig-U13992-1 (Contig-U13992-1Q) /CSM_Contig/Conti... 30 1.2
Contig-U12080-1 (Contig-U12080-1Q) /CSM_Contig/Conti... 30 1.2
Contig-U11896-1 (Contig-U11896-1Q) /CSM_Contig/Conti... 30 1.2
Contig-U11855-1 (Contig-U11855-1Q) /CSM_Contig/Conti... 30 1.2
Contig-U11696-1 (Contig-U11696-1Q) /CSM_Contig/Conti... 30 1.2

>Contig-U08414-1 (Contig-U08414-1Q) /CSM_Contig/Contig-U08414-1Q.Seq.d
Length = 285

Score = 406 bits (205), Expect = e-114
Identities = 274/274 (100%)
Strand = Plus / Plus


Query: 11 gaaattaggaagtgcacctttgataaatcaattctaaanncngtcgttgnattatctaca 70
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 11 gaaattaggaagtgcacctttgataaatcaattctaaanncngtcgttgnattatctaca 70


Query: 71 acttttctttcnccnactgttgaattaaccgtncaactcaataatgatgattcttcaact 130
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71 acttttctttcnccnactgttgaattaaccgtncaactcaataatgatgattcttcaact 130


Query: 131 cataccanntcaatcgataatggtgtaagtggtatttcaaaagcatgntnccttttaaat 190
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 131 cataccanntcaatcgataatggtgtaagtggtatttcaaaagcatgntnccttttaaat 190


Query: 191 nnaattttcanagcttctcccgacactanaggatttgcnattnnatgtggtactngggat 250
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 191 nnaattttcanagcttctcccgacactanaggatttgcnattnnatgtggtactngggat 250


Query: 251 ggtnnaantggtttaattaaagctttnaataaaa 284
||||||||||||||||||||||||||||||||||
Sbjct: 251 ggtnnaantggtttaattaaagctttnaataaaa 284


>Contig-U11813-1 (Contig-U11813-1Q) /CSM_Contig/Contig-U11813-1Q.Seq.d
Length = 1138

Score = 32.2 bits (16), Expect = 0.30
Identities = 16/16 (100%)
Strand = Plus / Minus


Query: 112 taatgatgattcttca 127
||||||||||||||||
Sbjct: 272 taatgatgattcttca 257


>Contig-U10985-1 (Contig-U10985-1Q) /CSM_Contig/Contig-U10985-1Q.Seq.d
Length = 4897

Score = 32.2 bits (16), Expect = 0.30
Identities = 19/20 (95%)
Strand = Plus / Plus


Query: 109 caataatgatgattcttcaa 128
||||||||||||||| ||||
Sbjct: 3285 caataatgatgattcatcaa 3304


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: 2032
Number of Sequences: 6905
Number of extensions: 2032
Number of successful extensions: 601
Number of sequences better than 10.0: 57
length of query: 285
length of database: 5,674,871
effective HSP length: 15
effective length of query: 270
effective length of database: 5,571,296
effective search space: 1504249920
effective search space used: 1504249920
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 2008.11.13
Homology vs DNA
Query= Contig-U08414-1 (Contig-U08414-1Q) /CSM_Contig/Contig-U08414-1Q.Seq.d
(285 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

(BJ402355) Dictyostelium discoideum cDNA clone:dds16a14, 3' ... 404 e-109 1
(EK394198) 1095469512869 Global-Ocean-Sampling_GS-31-01-01-1... 46 0.65 1
(EK340923) 1095467060859 Global-Ocean-Sampling_GS-31-01-01-1... 46 0.65 1

>(BJ402355) Dictyostelium discoideum cDNA clone:dds16a14, 3' end,
single read.
Length = 276

Score = 404 bits (204), Expect = e-109
Identities = 273/273 (100%)
Strand = Plus / Minus


Query: 12 aaattaggaagtgcacctttgataaatcaattctaaanncngtcgttgnattatctacaa 71
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 275 aaattaggaagtgcacctttgataaatcaattctaaanncngtcgttgnattatctacaa 216


Query: 72 cttttctttcnccnactgttgaattaaccgtncaactcaataatgatgattcttcaactc 131
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 215 cttttctttcnccnactgttgaattaaccgtncaactcaataatgatgattcttcaactc 156


Query: 132 ataccanntcaatcgataatggtgtaagtggtatttcaaaagcatgntnccttttaaatn 191
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 155 ataccanntcaatcgataatggtgtaagtggtatttcaaaagcatgntnccttttaaatn 96


Query: 192 naattttcanagcttctcccgacactanaggatttgcnattnnatgtggtactngggatg 251
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 95 naattttcanagcttctcccgacactanaggatttgcnattnnatgtggtactngggatg 36


Query: 252 gtnnaantggtttaattaaagctttnaataaaa 284
|||||||||||||||||||||||||||||||||
Sbjct: 35 gtnnaantggtttaattaaagctttnaataaaa 3

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 178,956,741
Number of extensions: 9776678
Number of successful extensions: 518961
Number of sequences better than 10.0: 3
Length of query: 285
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 262
Effective length of database: 93,106,754,628
Effective search space: 24393969712536
Effective search space used: 24393969712536
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 6.24
Homology vs Protein
Query= Contig-U08414-1 (Contig-U08414-1Q) /CSM_Contig/Contig-U08414-1Q.Seq.d
(285 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: 255,107,286
Number of extensions: 3211103
Number of successful extensions: 3359
Number of sequences better than 10.0: 0
Number of HSP's gapped: 3359
Number of HSP's successfully gapped: 0
Length of query: 95
Length of database: 1,040,966,779
Length adjustment: 64
Effective length of query: 31
Effective length of database: 835,892,539
Effective search space: 25912668709
Effective search space used: 25912668709
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: 28 (15.4 bits)

PSORT

psg: 0.91 gvh: 0.62 alm: 0.38 top: 0.40 tms: 0.00 mit: 0.29 mip: 0.00
nuc: 0.00 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

24.0 %: cytoplasmic
24.0 %: mitochondrial
20.0 %: extracellular, including cell wall
12.0 %: nuclear
12.0 %: endoplasmic reticulum
4.0 %: cytoskeletal
4.0 %: vacuolar

>> prediction for Contig-U08414-1 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) 0
SF (FL, S) 1
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0