Contig-U15082-1
Contig ID Contig-U15082-1
Contig update 2004. 6.11
Contig sequence
>Contig-U15082-1 (Contig-U15082-1Q) /CSM_Contig/Contig-U15082-1Q.Seq.d
AAAAAACCCTGACACTTTAAAAAAAAAAAGCCACCTTATTTTCTTTAAAT
AATAATTAATAATCTTAATAGTATAATAAAATGACATTTGTTAAAGGTGT
TTGTTTCGATCCAGCTCAAGCAAAGAAATCAGTTTTAGATGTTAAAGAAA
CTCTTTTAAATTTAGAAACCCAAGTAAAGAAAACTTCATTATCAAAAGAT
GAAGCTGTAGATGCTTATAAAATTTATGAAACTTTACCACTCACTTTCCA
AATCAATTGGTCTATTGCAGGTGAAGATGCTAATGAAAACCAAAAAGTTG
CAGATTTCTGTAGAGACAAATTAAATGAATTAAATCATGTCCATAATTTT
ACATCATCTAAAATTCCAAGAGCTTTCAATGCTGATAATAGTTATTAAAT
ATATATGAATAATAATAATAATAATAATAATAATAATCAATAATCAATAA
TAATTAATAATAATAATTCTTTAAAATAGAAATTGTTGTCTACTTGTAAA
TATATAAATAAAATAAACCAAATCTTTAAACACTTAAAAAAAAAA

Gap no gap
Contig length 545
Chromosome number (1..6, M) 4
Chromosome length 5430582
Start point 387014
End point 386470
Strand (PLUS/MINUS) MINUS
Number of clones 6
Number of EST 7
Link to clone list U15082
List of clone(s)

est1=CHP894F,-21,543
est2=VFJ882F,1,545
est3=FC-BM09E,15,535
est4=VSE132E,15,537
est5=CHP894Z,18,482
est6=SSC372E,22,540
est7=VSA776Z,26,537
Translated Amino Acid sequence
ktltl*kkkatlfslnnn**s**YNKMTFVKGVCFDPAQAKKSVLDVKETLLNLETQVKK
TSLSKDEAVDAYKIYETLPLTFQINWSIAGEDANENQKVADFCRDKLNELNHVHNFTSSK
IPRAFNADNSY*iymnnnnnnnnnnq*siiinnnnslk*kllstckyinkinqifkhlkk
k


Translated Amino Acid sequence (All Frames)
Frame A:
kkp*hfkkkkppyfl*iiinnlnsiik*hllkvfvsiqlkqrnqf*mlkklf*i*kpk*r
klhyqkmkl*mlikfmklyhslsksigllqvkmlmktkklqisvetn*mn*imsiilhhl
kfqelsmliivikyi*iiiiiiiiiinnq**liiiil*nrnccllvni*ik*tkslnt*k
k


Frame B:
knpdtlkkkshliffk**liiliv**ndic*rclfrsssskeisfrc*rnsfkfrnpske
nfiikr*scrcl*nl*nftthfpnqlvycr*rc**kpkscrfl*rqik*ikscp*fyii*
nsksfqc***llniye*********siinnn****ffkieivvyl*iyk*nkpnl*tlkk
k


Frame C:
ktltl*kkkatlfslnnn**s**YNKMTFVKGVCFDPAQAKKSVLDVKETLLNLETQVKK
TSLSKDEAVDAYKIYETLPLTFQINWSIAGEDANENQKVADFCRDKLNELNHVHNFTSSK
IPRAFNADNSY*iymnnnnnnnnnnq*siiinnnnslk*kllstckyinkinqifkhlkk
k


own update 2004. 6.23
Homology vs CSM-cDNA
Query= Contig-U15082-1 (Contig-U15082-1Q)
/CSM_Contig/Contig-U15082-1Q.Seq.d
(545 letters)

Database: CSM
8402 sequences; 8,075,542 total letters


Score E
Sequences producing significant alignments: (bits) Value

Contig-U15082-1 (Contig-U15082-1Q) /CSM_Contig/Conti... 599 e-171
Contig-U11920-1 (Contig-U11920-1Q) /CSM_Contig/Conti... 42 9e-04
Contig-U12270-1 (Contig-U12270-1Q) /CSM_Contig/Conti... 40 0.003
Contig-U05054-1 (Contig-U05054-1Q) /CSM_Contig/Conti... 40 0.003
Contig-U16411-1 (Contig-U16411-1Q) /CSM_Contig/Conti... 38 0.014
Contig-U15656-1 (Contig-U15656-1Q) /CSM_Contig/Conti... 38 0.014
Contig-U15191-1 (Contig-U15191-1Q) /CSM_Contig/Conti... 38 0.014
Contig-U11038-1 (Contig-U11038-1Q) /CSM_Contig/Conti... 38 0.014
Contig-U04751-1 (Contig-U04751-1Q) /CSM_Contig/Conti... 38 0.014
Contig-U02757-1 (Contig-U02757-1Q) /CSM_Contig/Conti... 38 0.014

>Contig-U15082-1 (Contig-U15082-1Q) /CSM_Contig/Contig-U15082-1Q.Seq.d
Length = 545

Score = 599 bits (302), Expect = e-171
Identities = 302/302 (100%)
Strand = Plus / Plus


Query: 83 gacatttgttaaaggtgtttgtttcgatccagctcaagcaaagaaatcagttttagatgt 142
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83 gacatttgttaaaggtgtttgtttcgatccagctcaagcaaagaaatcagttttagatgt 142


Query: 143 taaagaaactcttttaaatttagaaacccaagtaaagaaaacttcattatcaaaagatga 202
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 143 taaagaaactcttttaaatttagaaacccaagtaaagaaaacttcattatcaaaagatga 202


Query: 203 agctgtagatgcttataaaatttatgaaactttaccactcactttccaaatcaattggtc 262
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 203 agctgtagatgcttataaaatttatgaaactttaccactcactttccaaatcaattggtc 262


Query: 263 tattgcaggtgaagatgctaatgaaaaccaaaaagttgcagatttctgtagagacaaatt 322
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 263 tattgcaggtgaagatgctaatgaaaaccaaaaagttgcagatttctgtagagacaaatt 322


Query: 323 aaatgaattaaatcatgtccataattttacatcatctaaaattccaagagctttcaatgc 382
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 323 aaatgaattaaatcatgtccataattttacatcatctaaaattccaagagctttcaatgc 382


Query: 383 tg 384
||
Sbjct: 383 tg 384


Score = 135 bits (68), Expect = 8e-32
Identities = 68/68 (100%)
Strand = Plus / Plus


Query: 468 tctttaaaatagaaattgttgtctacttgtaaatatataaataaaataaaccaaatcttt 527
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 468 tctttaaaatagaaattgttgtctacttgtaaatatataaataaaataaaccaaatcttt 527


Query: 528 aaacactt 535
||||||||
Sbjct: 528 aaacactt 535


Score = 36.2 bits (18), Expect = 0.054
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 1 aaaaaaccctgacacttt 18
||||||||||||||||||
Sbjct: 1 aaaaaaccctgacacttt 18


Score = 30.2 bits (15), Expect = 3.3
Identities = 15/15 (100%)
Strand = Plus / Plus


Query: 30 gccaccttattttct 44
|||||||||||||||
Sbjct: 30 gccaccttattttct 44


>Contig-U11920-1 (Contig-U11920-1Q) /CSM_Contig/Contig-U11920-1Q.Seq.d
Length = 1283

Score = 42.1 bits (21), Expect = 9e-04
Identities = 21/21 (100%)
Strand = Plus / Plus


Query: 497 taaatatataaataaaataaa 517
|||||||||||||||||||||
Sbjct: 48 taaatatataaataaaataaa 68


>Contig-U12270-1 (Contig-U12270-1Q) /CSM_Contig/Contig-U12270-1Q.Seq.d
Length = 755

Score = 40.1 bits (20), Expect = 0.003
Identities = 20/20 (100%)
Strand = Plus / Plus


Query: 498 aaatatataaataaaataaa 517
||||||||||||||||||||
Sbjct: 663 aaatatataaataaaataaa 682


Database: CSM
Posted date: Jun 21, 2004 1:35 PM
Number of letters in database: 8,075,542
Number of sequences in database: 8402

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: 13,033
Number of Sequences: 8402
Number of extensions: 13033
Number of successful extensions: 1679
Number of sequences better than 10.0: 266
length of query: 545
length of database: 8,075,542
effective HSP length: 16
effective length of query: 529
effective length of database: 7,941,110
effective search space: 4200847190
effective search space used: 4200847190
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)
dna update 2009. 1.11
Homology vs DNA
Query= Contig-U15082-1 (Contig-U15082-1Q) /CSM_Contig/Contig-U15082-1Q.Seq.d
(545 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

(AU262894) Dictyostelium discoideum vegetative cDNA clone:VS... 599 e-170 2
(AU284827) Dictyostelium discoideum gamete cDNA clone:FC-BM0... 599 e-170 2
(AU075964) Dictyostelium discoideum slug cDNA, clone SSC372. 599 e-170 2
(AU261730) Dictyostelium discoideum vegetative cDNA clone:VS... 599 e-170 2
(BJ414900) Dictyostelium discoideum cDNA clone:ddv20d22, 5' ... 575 e-168 3
(BJ383687) Dictyostelium discoideum cDNA clone:ddc53l24, 3' ... 599 e-167 1
(BJ370380) Dictyostelium discoideum cDNA clone:ddc53l24, 5' ... 585 e-166 2
(AU071721) Dictyostelium discoideum slug cDNA, clone SSC372. 355 5e-97 2
(EJ748645) 1092963019414 Global-Ocean-Sampling_GS-30-02-01-1... 50 0.083 1
(EJ748553) 1092963018646 Global-Ocean-Sampling_GS-30-02-01-1... 50 0.083 1
(EJ051542) 1095456001486 Global-Ocean-Sampling_GS-26-01-01-1... 50 0.083 1
(EJ009276) 1095403584345 Global-Ocean-Sampling_GS-26-01-01-1... 50 0.083 1
(EC761389) PSE00005024 rw_mgpallid Polysphondylium pallidum ... 50 0.083 1
(EC745246) PSE00004399 rw_mgpallid Polysphondylium pallidum ... 50 0.083 1
(DX279087) OR_ABa0177P09.r OR_ABa Oryza ridleyi genomic clon... 46 1.3 1
(CW450276) fsbb001f188n11f0 Sorghum methylation filtered lib... 46 1.3 1
(EJ783225) 1093017295327 Global-Ocean-Sampling_GS-30-02-01-1... 38 2.3 2
(CC584543) CH240_381I19.T7 CHORI-240 Bos taurus genomic clon... 36 2.5 2
(EJ874663) 1093018362835 Global-Ocean-Sampling_GS-30-02-01-1... 38 2.7 2
(AP010279) Lotus japonicus genomic DNA, chromosome 2, clone:... 40 3.3 3
(AJ831725) Zygaena ignifera mitochondrial tRNA-Leu (CUN) gen... 42 4.1 2
(AJ831719) Zygaena armena armena mitochondrial tRNA-Leu (CUN... 42 4.1 2
(AJ831729) Zygaena loti macedonica mitochondrial tRNA-Leu (C... 42 4.1 2
(AF451898) Heliothis zea virus 1, complete genome. 44 5.1 1
(E10704) DNA sequence of persistency associated gene 1 (hem1... 44 5.1 1
(AR071501) Sequence 1 from patent US 5911982. 44 5.1 1
(AR062598) Sequence 1 from patent US 5843736. 44 5.1 1
(AL512290) Human DNA sequence from clone RP13-143G15 on chro... 44 5.1 1
(AC139419) Homo sapiens chromosome 17 clone RP11-1105M19 map... 44 5.1 1
(AC022654) Homo sapiens clone RP11-28N15, WORKING DRAFT SEQU... 44 5.1 1
(EK306167) 1095462382261 Global-Ocean-Sampling_GS-31-01-01-1... 44 5.1 1
(EH637561) EST8669 LK04 Laupala kohalensis cDNA clone 106102... 44 5.1 1
(DB749320) Apis mellifera head cDNA, RIKEN full-length enric... 44 5.1 1
(DB743642) Apis mellifera head cDNA, RIKEN full-length enric... 44 5.1 1
(DB740291) Apis mellifera head cDNA, RIKEN full-length enric... 44 5.1 1
(AC182704) Populus trichocarpa clone Pop1-77L19, WORKING DRA... 34 6.9 5
(DV205834) 0089P0071Z_C06_T7 Mimulus guttatus library 2 Mimu... 36 7.3 2
(DX405769) GR_Sa0003K03.b1 Gossypium raimondii WGS library G... 36 8.7 2

>(AU262894) Dictyostelium discoideum vegetative cDNA clone:VSE132,
3' end single read.
Length = 523

Score = 599 bits (302), Expect(2) = e-170
Identities = 302/302 (100%)
Strand = Plus / Plus


Query: 83 gacatttgttaaaggtgtttgtttcgatccagctcaagcaaagaaatcagttttagatgt 142
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 69 gacatttgttaaaggtgtttgtttcgatccagctcaagcaaagaaatcagttttagatgt 128


Query: 143 taaagaaactcttttaaatttagaaacccaagtaaagaaaacttcattatcaaaagatga 202
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 129 taaagaaactcttttaaatttagaaacccaagtaaagaaaacttcattatcaaaagatga 188


Query: 203 agctgtagatgcttataaaatttatgaaactttaccactcactttccaaatcaattggtc 262
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 189 agctgtagatgcttataaaatttatgaaactttaccactcactttccaaatcaattggtc 248


Query: 263 tattgcaggtgaagatgctaatgaaaaccaaaaagttgcagatttctgtagagacaaatt 322
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 249 tattgcaggtgaagatgctaatgaaaaccaaaaagttgcagatttctgtagagacaaatt 308


Query: 323 aaatgaattaaatcatgtccataattttacatcatctaaaattccaagagctttcaatgc 382
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 309 aaatgaattaaatcatgtccataattttacatcatctaaaattccaagagctttcaatgc 368


Query: 383 tg 384
||
Sbjct: 369 tg 370

Score = 32.2 bits (16), Expect(2) = e-170
Identities = 16/16 (100%)
Strand = Plus / Plus


Query: 30 gccaccttattttctt 45
||||||||||||||||
Sbjct: 16 gccaccttattttctt 31

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 470,992,968
Number of extensions: 28949051
Number of successful extensions: 2256160
Number of sequences better than 10.0: 38
Length of query: 545
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 522
Effective length of database: 93,106,754,628
Effective search space: 48601725915816
Effective search space used: 48601725915816
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7.14
Homology vs Protein
Query= Contig-U15082-1 (Contig-U15082-1Q) /CSM_Contig/Contig-U15082-1Q.Seq.d
(545 letters)

Database: nrp_B
3,236,559 sequences; 1,051,180,864 total letters

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

Score E
Sequences producing significant alignments: (bits) Value

CP000924_290(CP000924|pid:none) Thermoanaerobacter pseudethanoli... 33 6.3
CP000923_766(CP000923|pid:none) Thermoanaerobacter sp. X514, com... 33 6.3
CU928170_238(CU928170|pid:none) Kluyveromyces thermotolerans str... 32 8.2

>CP000924_290(CP000924|pid:none) Thermoanaerobacter pseudethanolicus
ATCC 33223, complete genome.
Length = 386

Score = 32.7 bits (73), Expect = 6.3
Identities = 13/34 (38%), Positives = 20/34 (58%)
Frame = +3

Query: 264 IAGEDANENQKVADFCRDKLNELNHVHNFTSSKI 365
I ++ E+ K D CR+KL EL ++ FTS +
Sbjct: 19 ITAKNVEEHLKTCDVCREKLEELKSINEFTSKAL 52

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: 607,523,605
Number of extensions: 8827295
Number of successful extensions: 20547
Number of sequences better than 10.0: 3
Number of HSP's gapped: 20545
Number of HSP's successfully gapped: 3
Length of query: 181
Length of database: 1,051,180,864
Length adjustment: 120
Effective length of query: 61
Effective length of database: 662,793,784
Effective search space: 40430420824
Effective search space used: 40430420824
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: 30 (16.2 bits)

PSORT

psg: 0.73 gvh: 0.47 alm: 0.52 top: 0.53 tms: 0.00 mit: 0.20 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

36.0 %: cytoplasmic
28.0 %: nuclear
16.0 %: mitochondrial
12.0 %: cytoskeletal
4.0 %: vacuolar
4.0 %: endoplasmic reticulum

>> prediction for Contig-U15082-1 is cyt

VS (DIR, S) 2
VH (FL, L) 0
VF (FL, S) 1
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) 1
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 1
FC-IC (SUB) 0