Contig-U10492-1
Contig ID Contig-U10492-1
Contig update 2002. 9.13
Contig sequence
>Contig-U10492-1 (Contig-U10492-1Q) /CSM_Contig/Contig-U10492-1Q.Seq.d
NNNNNNNNNNATNAAAACNCTTGGTTTNAACATGCTTCAAANGCCNTTCA
TCATTTATCCNTTCATTTTNTTACGTCAATTAAGNGGNGANACAAATNTA
CTCGTTGANGNTGGNGCCCTTTGGNTTAANAATCTNTNTANGGCCGATCC
NTATTATATTTTACCNTTAGNATNTTCAATTTTCCAANATGGNTCCGTTN
GTTTNTCAANGNCTGATGANACTAGNCCAATGATGAAAACNATTANGNCT
TCNTTTTGNTTTTTACCCTTAGNTTTTACTATTCCTTTTGCTGCTAGNTT
NAATATTTATTGGGCNGTTAATTCAATGNTTTTTGCCTTTACTAATTGGN
TTTTAAAATCANAAANAGGNTGTAAATTATTTAATATTCCATATTTTAAA
AAAGT

Gap no gap
Contig length 405
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 U10492
List of clone(s)

est1=VFM350Z,1,396
Translated Amino Acid sequence
XXXXKTLGXNMLQXPFIIYPFIXLRQLXGXTNXLVXXGALWXXNLXXADPYYILPLXXSI
FQXGSVXXSXXDXTXPMMKTIXXSFXFLPLXFTIPFAAXXNIYWAVNSMXFAFTNWXLKS
XXGCKLFNIPYFKK


Translated Amino Acid sequence (All Frames)
Frame A:
xxxxxnxwfxhasxaxhhlsxhfxtsikxxxkxtr*xwxplx*xsxxgrsxlyftxxxfn
fpxwxrxfxxx**x*xndenxxxfxlxftlxfyysfcc*xxyllgx*fnxfcly*lxfki
xxrx*ii*ysif*ks


Frame B:
XXXXKTLGXNMLQXPFIIYPFIXLRQLXGXTNXLVXXGALWXXNLXXADPYYILPLXXSI
FQXGSVXXSXXDXTXPMMKTIXXSFXFLPLXFTIPFAAXXNIYWAVNSMXFAFTNWXLKS
XXGCKLFNIPYFKK


Frame C:
xxxxkxlvxtcfkxxssfixsfxyvn*xxxqxyslxxxpfglxixxxpixiifyx*xxqf
sxmxpxvxqxlmxlxq**kxlxlxfxfyp*xllfllllxxifigxliqxflplligf*nx
kxxvnylifhilkk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U10492-1 (Contig-U10492-1Q)
/CSM_Contig/Contig-U10492-1Q.Seq.d
(405 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U10492-1 (Contig-U10492-1Q) /CSM_Contig/Conti... 480 e-136
Contig-U09475-1 (Contig-U09475-1Q) /CSM_Contig/Conti... 40 0.002
Contig-U12244-1 (Contig-U12244-1Q) /CSM_Contig/Conti... 32 0.44
Contig-U05703-1 (Contig-U05703-1Q) /CSM_Contig/Conti... 32 0.44
Contig-U13937-1 (Contig-U13937-1Q) /CSM_Contig/Conti... 30 1.7
Contig-U13515-1 (Contig-U13515-1Q) /CSM_Contig/Conti... 30 1.7
Contig-U13224-1 (Contig-U13224-1Q) /CSM_Contig/Conti... 30 1.7
Contig-U11577-1 (Contig-U11577-1Q) /CSM_Contig/Conti... 30 1.7
Contig-U11510-1 (Contig-U11510-1Q) /CSM_Contig/Conti... 30 1.7

>Contig-U10492-1 (Contig-U10492-1Q) /CSM_Contig/Contig-U10492-1Q.Seq.d
Length = 405

Score = 480 bits (242), Expect = e-136
Identities = 386/392 (98%)
Strand = Plus / Plus


Query: 14 aaaacncttggtttnaacatgcttcaaangccnttcatcatttatccnttcannnnnnna 73
|||||||||||||||||||||||||||||||||||||||||||||||||||| | |
Sbjct: 14 aaaacncttggtttnaacatgcttcaaangccnttcatcatttatccnttcattttntta 73


Query: 74 cgtcaattaagnggnganacaaatntactcgttgangntggngccctttggnttaanaat 133
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 74 cgtcaattaagnggnganacaaatntactcgttgangntggngccctttggnttaanaat 133


Query: 134 ctntntanggccgatccntattatattttaccnttagnatnttcaattttccaanatggn 193
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 134 ctntntanggccgatccntattatattttaccnttagnatnttcaattttccaanatggn 193


Query: 194 tccgttngtttntcaangnctgatganactagnccaatgatgaaaacnattangncttcn 253
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 194 tccgttngtttntcaangnctgatganactagnccaatgatgaaaacnattangncttcn 253


Query: 254 ttttgntttttacccttagnttttactattccttttgctgctagnttnaatatttattgg 313
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 254 ttttgntttttacccttagnttttactattccttttgctgctagnttnaatatttattgg 313


Query: 314 gcngttaattcaatgntttttgcctttactaattggnttttaaaatcanaaanaggntgt 373
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 314 gcngttaattcaatgntttttgcctttactaattggnttttaaaatcanaaanaggntgt 373


Query: 374 aaattatttaatattccatattttaaaaaagt 405
||||||||||||||||||||||||||||||||
Sbjct: 374 aaattatttaatattccatattttaaaaaagt 405


>Contig-U09475-1 (Contig-U09475-1Q) /CSM_Contig/Contig-U09475-1Q.Seq.d
Length = 942

Score = 40.1 bits (20), Expect = 0.002
Identities = 20/20 (100%)
Strand = Plus / Plus


Query: 382 taatattccatattttaaaa 401
||||||||||||||||||||
Sbjct: 660 taatattccatattttaaaa 679


>Contig-U12244-1 (Contig-U12244-1Q) /CSM_Contig/Contig-U12244-1Q.Seq.d
Length = 1460

Score = 32.2 bits (16), Expect = 0.44
Identities = 16/16 (100%)
Strand = Plus / Plus


Query: 381 ttaatattccatattt 396
||||||||||||||||
Sbjct: 1255 ttaatattccatattt 1270


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: 3246
Number of Sequences: 6905
Number of extensions: 3246
Number of successful extensions: 295
Number of sequences better than 10.0: 72
length of query: 405
length of database: 5,674,871
effective HSP length: 16
effective length of query: 389
effective length of database: 5,564,391
effective search space: 2164548099
effective search space used: 2164548099
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 2008.11.20
Homology vs DNA
Query= Contig-U10492-1 (Contig-U10492-1Q) /CSM_Contig/Contig-U10492-1Q.Seq.d
(405 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

(BJ434948) Dictyostelium discoideum cDNA clone:ddv25d13, 3' ... 515 e-142 1
(CU480849) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 50 0.061 1
(CZ533362) SRAA-aac84f11.g1 Strongyloides ratti whole genome... 50 0.061 1
(DC445620) Gryllus bimaculatus mRNA, clone:GBpAP003_H10, uns... 46 0.95 1
(AC163356) Mus musculus BAC clone RP23-13A21 from chromosome... 44 3.8 1
(AC148326) Mus musculus BAC clone RP24-377D18 from 6, comple... 44 3.8 1
(AC122191) Mus musculus BAC clone RP23-42J4 from 6, complete... 44 3.8 1
(AC132772) Rattus norvegicus clone CH230-181O2, *** SEQUENCI... 44 3.8 1
(AC117554) Ciona savignyi clone -1B6, *** SEQUENCING IN PROG... 44 3.8 1
(AC096151) Rattus norvegicus clone CH230-10H21, *** SEQUENCI... 44 3.8 1
(AC095423) Rattus norvegicus clone CH230-7C18, *** SEQUENCIN... 44 3.8 1
(AZ868950) 2M0180D19R Mouse 10kb plasmid UUGC1M library Mus ... 44 3.8 1
(EJ122009) 1092343377316 Global-Ocean-Sampling_GS-27-01-01-1... 44 3.8 1

>(BJ434948) Dictyostelium discoideum cDNA clone:ddv25d13, 3' end,
single read.
Length = 396

Score = 515 bits (260), Expect = e-142
Identities = 392/392 (100%)
Strand = Plus / Minus


Query: 14 aaaacncttggtttnaacatgcttcaaangccnttcatcatttatccnttcattttntta 73
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 393 aaaacncttggtttnaacatgcttcaaangccnttcatcatttatccnttcattttntta 334


Query: 74 cgtcaattaagnggnganacaaatntactcgttgangntggngccctttggnttaanaat 133
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 333 cgtcaattaagnggnganacaaatntactcgttgangntggngccctttggnttaanaat 274


Query: 134 ctntntanggccgatccntattatattttaccnttagnatnttcaattttccaanatggn 193
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 273 ctntntanggccgatccntattatattttaccnttagnatnttcaattttccaanatggn 214


Query: 194 tccgttngtttntcaangnctgatganactagnccaatgatgaaaacnattangncttcn 253
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 213 tccgttngtttntcaangnctgatganactagnccaatgatgaaaacnattangncttcn 154


Query: 254 ttttgntttttacccttagnttttactattccttttgctgctagnttnaatatttattgg 313
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 153 ttttgntttttacccttagnttttactattccttttgctgctagnttnaatatttattgg 94


Query: 314 gcngttaattcaatgntttttgcctttactaattggnttttaaaatcanaaanaggntgt 373
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 93 gcngttaattcaatgntttttgcctttactaattggnttttaaaatcanaaanaggntgt 34


Query: 374 aaattatttaatattccatattttaaaaaagt 405
||||||||||||||||||||||||||||||||
Sbjct: 33 aaattatttaatattccatattttaaaaaagt 2

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 238,061,468
Number of extensions: 16264021
Number of successful extensions: 813866
Number of sequences better than 10.0: 13
Length of query: 405
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 382
Effective length of database: 93,106,754,628
Effective search space: 35566780267896
Effective search space used: 35566780267896
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 6.28
Homology vs Protein
Query= Contig-U10492-1 (Contig-U10492-1Q) /CSM_Contig/Contig-U10492-1Q.Seq.d
(405 letters)

Database: nrp_A
3,204,285 sequences; 1,040,966,779 total letters

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

Score E
Sequences producing significant alignments: (bits) Value

FN313919_1(FN313919|pid:none) Schistosoma japonicum isolate Anhu... 38 0.13
CP000776_612(CP000776|pid:none) Campylobacter hominis ATCC BAA-3... 37 0.17
CP000814_898(CP000814|pid:none) Campylobacter jejuni subsp. jeju... 36 0.48
EU931170_1(EU931170|pid:none) Drosophila affinis CG6404-like pro... 35 0.63
BC152065_1(BC152065|pid:none) Xenopus tropicalis hypothetical pr... 35 0.63
AE014296_1981(AE014296|pid:none) Drosophila melanogaster chromos... 35 0.82
CP001616_3125(CP001616|pid:none) Tolumonas auensis DSM 9187, com... 34 1.4
CP000025_1005(CP000025|pid:none) Campylobacter jejuni RM1221, co... 34 1.4
CP000768_677(CP000768|pid:none) Campylobacter jejuni subsp. doyl... 34 1.4
CP001279_803(CP001279|pid:none) Nautilia profundicola AmH, compl... 34 1.8
CP001010_1505(CP001010|pid:none) Polynucleobacter necessarius su... 33 2.4
CP000386_3136(CP000386|pid:none) Rubrobacter xylanophilus DSM 99... 33 2.4
(Q5F4W6) RecName: Full=Inner membrane protein oxaA; &AE004969_1... 33 3.1
(A1KRZ8) RecName: Full=Inner membrane protein oxaA; &(Q9JXS4) R... 33 3.1
CP000724_2095(CP000724|pid:none) Alkaliphilus metalliredigens QY... 33 3.1
AP009178_881(AP009178|pid:none) Nitratiruptor sp. SB155-2 genomi... 33 3.1
AC051634_22(AC051634|pid:none) Oryza sativa chromosome 10 BAC OS... 33 3.1
AC079029_22(AC079029|pid:none) Oryza sativa chromosome 10 BAC OS... 33 3.1
CP000792_772(CP000792|pid:none) Campylobacter concisus 13826, co... 33 3.1
CP001050_2658(CP001050|pid:none) Neisseria gonorrhoeae NCCP11945... 33 3.1
CP001275_1036(CP001275|pid:none) Thermomicrobium roseum DSM 5159... 33 3.1
BC134230_1(BC134230|pid:none) Danio rerio zgc:163091, mRNA (cDNA... 33 4.1
BT074933_1(BT074933|pid:none) Osmerus mordax clone omor-rgc-512-... 33 4.1
(Q9JW48) RecName: Full=Inner membrane protein oxaA; &AL157959_4... 33 4.1
B86055(B86055)60 KD inner-membrane protein [imported] - Escheric... 32 5.3
(A9MJT7) RecName: Full=Inner membrane protein oxaA; &CP000880_3... 32 5.3
(A7ZTR1) RecName: Full=Inner membrane protein oxaA; &CP000800_4... 32 5.3
(Q31UV9) RecName: Full=Inner membrane protein oxaA; &CP000036_3... 32 5.3
CP001144_3836(CP001144|pid:none) Salmonella enterica subsp. ente... 32 5.3
FP236842_3673(FP236842|pid:none) Erwinia pyrifoliae strain Ep1/9... 32 5.3
(Q6CYR0) RecName: Full=Inner membrane protein oxaA; &BX950851_4... 32 5.3
(Q8Z2N7) RecName: Full=Inner membrane protein oxaA; &AE014613_3... 32 5.3
(Q57HZ7) RecName: Full=Inner membrane protein oxaA; &AE017220_3... 32 5.3
AY809112_1(AY809112|pid:none) Schistosoma japonicum SJCHGC08195 ... 32 5.3
(A9MX83) RecName: Full=Inner membrane protein oxaA; &(Q5PKU2) R... 32 5.3
BC001669_1(BC001669|pid:none) Homo sapiens oxidase (cytochrome c... 32 7.0
(Q15070) RecName: Full=Mitochondrial inner membrane protein OXA1... 32 7.0
CP000529_4076(CP000529|pid:none) Polaromonas naphthalenivorans C... 32 7.0
BX248001_1(BX248001|pid:none) human full-length cDNA clone CS0DM... 32 7.0
AJ001981_1(AJ001981|pid:none) Homo sapiens OXA1L gene complete s... 32 7.0
(Q6LW55) RecName: Full=Inner membrane protein oxaA; &CR378663_3... 32 7.0
CP000804_1383(CP000804|pid:none) Roseiflexus castenholzii DSM 13... 32 7.0
BC112331_1(BC112331|pid:none) Homo sapiens oxidase (cytochrome c... 32 7.0
CR857498_1(CR857498|pid:none) Pongo abelii mRNA; cDNA DKFZp468H1... 32 7.0
(Q3SYV3) RecName: Full=Mitochondrial inner membrane protein OXA1... 32 7.0
CP001130_876(CP001130|pid:none) Hydrogenobaculum sp. Y04AAS1, co... 32 9.1
CP000109_2192(CP000109|pid:none) Thiomicrospira crunogena XCL-2,... 32 9.1
(A4T0N2) RecName: Full=Membrane protein oxaA; &CP000655_2074(CP... 32 9.1
AE017345_287(AE017345|pid:none) Cryptococcus neoformans var. neo... 32 9.1
AP009389_2919(AP009389|pid:none) Pelotomaculum thermopropionicum... 32 9.1

>FN313919_1(FN313919|pid:none) Schistosoma japonicum isolate Anhui
full length mRNA clone SJFCA0572|FSA001-P00031-E24,
complete sequence.
Length = 367

Score = 37.7 bits (86), Expect = 0.13
Identities = 31/132 (23%), Positives = 50/132 (37%), Gaps = 6/132 (4%)
Frame = +2

Query: 14 KTLGXNMLQXPFIIYPFIXLRQLXGX-TNXLVXXGALWXXNLXXADPYYILPLXXS---- 178
K+L LQ P + F +R L + G W +L +DPYYILP
Sbjct: 165 KSLKYMFLQVPIFLSVFTGIRGLVNLPVTSMQSGGIAWFTDLTASDPYYILPFLSMSTLL 224

Query: 179 -IFQXGSVXXSXXDXTXPMMKTIXXSXXXXXXXXXXXXAAXXNIYWAVNSMXFAFTNWXL 355
+F+ G+ S P+++T+ + YW V++M + L
Sbjct: 225 LVFETGAETPS--PHIQPVVRTVMRVFPIIGFVFVVNMPSALVWYWTVSNMLSFLQSLIL 282

Query: 356 KSXXGCKLFNIP 391
+ FN+P
Sbjct: 283 RYPPFRSYFNLP 294

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: 291,142,022
Number of extensions: 6355832
Number of successful extensions: 1173
Number of sequences better than 10.0: 50
Number of HSP's gapped: 1169
Number of HSP's successfully gapped: 50
Length of query: 135
Length of database: 1,040,966,779
Length adjustment: 99
Effective length of query: 36
Effective length of database: 723,742,564
Effective search space: 26054732304
Effective search space used: 26054732304
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: 29 (15.8 bits)

PSORT

psg: 0.92 gvh: 0.61 alm: 0.39 top: 0.47 tms: 0.00 mit: 0.31 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

28.0 %: nuclear
20.0 %: cytoplasmic
16.0 %: mitochondrial
16.0 %: extracellular, including cell wall
8.0 %: cytoskeletal
8.0 %: endoplasmic reticulum
4.0 %: peroxisomal

>> prediction for Contig-U10492-1 is nuc

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