Contig-U06632-1
Contig ID Contig-U06632-1
Contig update 2001. 8.30
Contig sequence
>Contig-U06632-1 (Contig-U06632-1Q) /CSM_Contig/Contig-U06632-1Q.Seq.d
ATTATAATTTACTTGGGATGGGGTGACAGTTGGGGGGAGAGGGGTATGAT
GATTATTTCTTTCCACCAATAATTATACCAATTAACATTGCAAATCCAAA
TAAATAATATAATTTGAATGTTTTAAGGTTTAATTTTTGATAGTTTCCAT
TTTTTAAGAAACCCTTACAAAAGATGAATAAAAATGGTAAGATTAATAAT
GGAACTAAAAATAACCAAATATTACCAAACTTTCCTGATAACCAAAATAA
ATAATAATAAGTTCTTTTTTTTTTAATTATTTTCAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAA

Gap no gap
Contig length 316
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 5589263
End point 5588976
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U06632
List of clone(s)

est1=VSE396Z,1,317
Translated Amino Acid sequence
ynllgmg*qlggegyddyffppiiipinianpnk*ynlnvlrfnf**FPFFKKPLQKMNK
NGKINNGTKNNQILPNFPDNQNK***vlffliifkkkkkkkkkk


Translated Amino Acid sequence (All Frames)
Frame A:
iiiylgwgdswgergmmiisfhq*lyqltlqiqinnii*mf*glifdsfhflrnpykr*i
kmvrlimelkitkyyqtflitkinnnkffff*lfskkkkkkkkkk


Frame B:
l*ftwdgvtvggrgv**lflstnnytn*hcksk*ii*fecfkv*flivsif*etltkde*
kw*d**wn*k*pnitkls**pk*iiissfffnyfqkkkkkkkkkk


Frame C:
ynllgmg*qlggegyddyffppiiipinianpnk*ynlnvlrfnf**FPFFKKPLQKMNK
NGKINNGTKNNQILPNFPDNQNK***vlffliifkkkkkkkkkk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U06632-1 (Contig-U06632-1Q)
/CSM_Contig/Contig-U06632-1Q.Seq.d
(316 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U06632-1 (Contig-U06632-1Q) /CSM_Contig/Conti... 523 e-149
Contig-U11906-1 (Contig-U11906-1Q) /CSM_Contig/Conti... 38 0.005
Contig-U12335-1 (Contig-U12335-1Q) /CSM_Contig/Conti... 36 0.022
Contig-U06308-1 (Contig-U06308-1Q) /CSM_Contig/Conti... 36 0.022
Contig-U05305-1 (Contig-U05305-1Q) /CSM_Contig/Conti... 36 0.022
Contig-U14897-1 (Contig-U14897-1Q) /CSM_Contig/Conti... 34 0.085
Contig-U14896-1 (Contig-U14896-1Q) /CSM_Contig/Conti... 34 0.085
Contig-U14383-1 (Contig-U14383-1Q) /CSM_Contig/Conti... 34 0.085
Contig-U14024-1 (Contig-U14024-1Q) /CSM_Contig/Conti... 34 0.085
Contig-U14393-1 (Contig-U14393-1Q) /CSM_Contig/Conti... 28 5.3

>Contig-U06632-1 (Contig-U06632-1Q) /CSM_Contig/Contig-U06632-1Q.Seq.d
Length = 316

Score = 523 bits (264), Expect = e-149
Identities = 264/264 (100%)
Strand = Plus / Plus


Query: 1 attataatttacttgggatggggtgacagttggggggagaggggtatgatgattatttct 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 attataatttacttgggatggggtgacagttggggggagaggggtatgatgattatttct 60


Query: 61 ttccaccaataattataccaattaacattgcaaatccaaataaataatataatttgaatg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 ttccaccaataattataccaattaacattgcaaatccaaataaataatataatttgaatg 120


Query: 121 ttttaaggtttaatttttgatagtttccattttttaagaaacccttacaaaagatgaata 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 ttttaaggtttaatttttgatagtttccattttttaagaaacccttacaaaagatgaata 180


Query: 181 aaaatggtaagattaataatggaactaaaaataaccaaatattaccaaactttcctgata 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 aaaatggtaagattaataatggaactaaaaataaccaaatattaccaaactttcctgata 240


Query: 241 accaaaataaataataataagttc 264
||||||||||||||||||||||||
Sbjct: 241 accaaaataaataataataagttc 264


>Contig-U11906-1 (Contig-U11906-1Q) /CSM_Contig/Contig-U11906-1Q.Seq.d
Length = 2132

Score = 38.2 bits (19), Expect = 0.005
Identities = 22/23 (95%)
Strand = Plus / Plus


Query: 238 ataaccaaaataaataataataa 260
||||| |||||||||||||||||
Sbjct: 93 ataacaaaaataaataataataa 115


Score = 34.2 bits (17), Expect = 0.085
Identities = 17/17 (100%)
Strand = Plus / Plus


Query: 244 aaaataaataataataa 260
|||||||||||||||||
Sbjct: 2015 aaaataaataataataa 2031


Score = 28.2 bits (14), Expect = 5.3
Identities = 17/18 (94%)
Strand = Plus / Plus


Query: 88 ttgcaaatccaaataaat 105
|||||||||||| |||||
Sbjct: 571 ttgcaaatccaattaaat 588


>Contig-U12335-1 (Contig-U12335-1Q) /CSM_Contig/Contig-U12335-1Q.Seq.d
Length = 1413

Score = 36.2 bits (18), Expect = 0.022
Identities = 21/22 (95%)
Strand = Plus / Plus


Query: 98 aaataaataatataatttgaat 119
|||||||||| |||||||||||
Sbjct: 1360 aaataaataaaataatttgaat 1381


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: 18,826
Number of Sequences: 6905
Number of extensions: 18826
Number of successful extensions: 1609
Number of sequences better than 10.0: 526
length of query: 316
length of database: 5,674,871
effective HSP length: 15
effective length of query: 301
effective length of database: 5,571,296
effective search space: 1676960096
effective search space used: 1676960096
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. 9
Homology vs DNA
Query= Contig-U06632-1 (Contig-U06632-1Q) /CSM_Contig/Contig-U06632-1Q.Seq.d
(316 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

(AU263074) Dictyostelium discoideum vegetative cDNA clone:VS... 212 e-102 2
(AC116960) Dictyostelium discoideum chromosome 2 map complem... 196 1e-94 2
(AC128671) Mus musculus BAC clone RP23-247F12 from 18, compl... 46 0.066 3
(AL591481) Zebrafish DNA sequence from clone BUSM1-101L20 in... 40 0.090 3
(AL591513) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 40 0.12 5
(BD428934) Method and nucleic acids for pharmacogenomic meth... 34 0.12 2
(AX348413) Sequence 108 from Patent WO0202806. 34 0.12 2
(AX356423) Sequence 57 from Patent WO0181622. 38 0.12 2
(AL162891) Human chromosome 14 DNA sequence BAC R-353P15 of ... 46 0.14 2
(AC027475) Homo sapiens chromosome 5 clone RP11-176M15 map 5... 32 0.41 2
(AC093217) Homo sapiens chromosome 5 clone CTD-2120M21, comp... 32 0.41 2
(AC026209) Homo sapiens chromosome 3 clone RP11-665L14 map 3... 32 0.42 2
(AC179300) Strongylocentrotus purpuratus clone R3-45O19, WOR... 34 0.44 4
(AQ125828) HS_2168_B2_C07_MF CIT Approved Human Genomic Sper... 36 0.54 2
(AL954175) Zebrafish DNA sequence from clone CH211-201N5. 38 0.54 2
(AC141478) Mus musculus BAC clone RP24-82N16 from chromosome... 46 0.73 1
(AC044884) Homo sapiens chromosome 2 clone RP11-576J20 map 2... 46 0.73 1
(AC026841) Homo sapiens chromosome 14 clone RP11-637N10 map ... 46 0.73 1
(EJ086503) 1095460111199 Global-Ocean-Sampling_GS-26-01-01-1... 46 0.73 1
(EJ043413) 1095454103709 Global-Ocean-Sampling_GS-26-01-01-1... 46 0.73 1
(FE542923) CAXC11821.fwd Amphioxus Branchiostoma floridae un... 46 0.73 1
(AC188101) Pongo abelii chromosome UNK clone CH276-45H12, co... 34 0.94 5
(AC017472) Drosophila melanogaster, *** SEQUENCING IN PROGRE... 40 1.5 2
(AC115680) Dictyostelium discoideum chromosome 2 map 4915084... 32 1.5 2
(AC010922) Drosophila melanogaster clone BACR09H01, complete... 40 1.7 2
(BX005016) Zebrafish DNA sequence from clone DKEY-104E13 in ... 40 2.1 3
(AL929352) Plasmodium falciparum strain 3D7, chromosome 5, s... 34 2.2 4
(AC163295) Mus musculus BAC clone RP23-132K20 from chromosom... 44 2.3 2
(CT033786) Mouse DNA sequence from clone RP24-298F18 on chro... 44 2.9 1
(AC130144) Rattus norvegicus clone CH230-114D8, WORKING DRAF... 44 2.9 1
(AC127641) Rattus norvegicus clone CH230-114B5, *** SEQUENCI... 44 2.9 1
(AC120478) Rattus norvegicus clone CH230-31C10, WORKING DRAF... 44 2.9 1
(AC111673) Rattus norvegicus clone CH230-49J17, *** SEQUENCI... 44 2.9 1
(AC105877) Rattus norvegicus clone CH230-79A6, *** SEQUENCIN... 44 2.9 1
(AM616308) Entamoeba invadens IP1 GSS, clone inv078c07.p1k. 44 2.9 1
(DE371589) Bombyx mori genomic DNA, BAC clone:BET_633_I05. 44 2.9 1
(CL779262) OR_BBa0094E05.f OR_BBa Oryza nivara genomic clone... 44 2.9 1
(AX344555) Sequence 6 from Patent WO0200932. 36 3.0 4
(AC027032) Arabidopsis thaliana chromosome 1 BAC F10O5 genom... 34 3.1 3
(EK153625) 1095456064890 Global-Ocean-Sampling_GS-31-01-01-1... 36 3.4 2
(BX539319) Zebrafish DNA sequence *** SEQUENCING CANCELLED *... 40 3.9 2
(AC159591) Dasypus novemcinctus clone VMRC5-435G7, WORKING D... 38 4.2 4
(AL592550) Zebrafish DNA sequence from clone BUSM1-18F12 in ... 40 4.2 2
(CR762431) Zebrafish DNA sequence from clone DKEY-220O10 in ... 38 4.2 2
(BN000483) TPA: Homo sapiens psiKRTH pseudogene. 32 4.3 3
(AL672279) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 40 5.0 2
(AX356421) Sequence 55 from Patent WO0181622. 38 5.1 2
(AX279991) Sequence 13 from Patent WO0177378. 38 5.1 2
(BX629346) Zebrafish DNA sequence from clone DKEY-16N21 in l... 32 5.3 2
(CR405717) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 32 5.3 2
(AC208807) Heliconius erato clone BBAM-13K22, WORKING DRAFT ... 30 5.4 2
(CU928679) S.lycopersicum DNA sequence *** SEQUENCING IN PRO... 38 5.5 2
(AX344704) Sequence 129 from Patent WO0200927. 38 5.6 2
(AC151555) Dasypus novemcinctus clone VMRC5-321K18, WORKING ... 38 6.1 4
(DQ832718) Phytophthora ramorum mitochondrion, complete genome. 36 6.2 5
(CR962124) Medicago truncatula chromosome 5 clone mth2-44c15... 38 6.2 3
(EU427470) Phytophthora ramorum strain CBS 101553 mitochondr... 36 6.3 5
(AX346874) Sequence 1945 from Patent WO0200928. 32 6.5 2
(AX345029) Sequence 100 from Patent WO0200928. 32 6.5 2
(AX344591) Sequence 16 from Patent WO0200927. 32 6.5 2
(DE155569) Bombyx mori genomic DNA, Fosmid clone:RO0298-F05_R. 32 6.8 2
(DE169167) Bombyx mori genomic DNA, Fosmid clone:RO0317-C10_R. 30 7.2 2
(EH305001) UAHYP_17A_F_F01 UaHyphae_ARS Uromyces appendicula... 30 7.3 2
(EH304996) UAHYP_17A_R_F01 UaHyphae_ARS Uromyces appendicula... 30 7.3 2
(FE662147) UAHAUST_06B_F_B07 UaHaust_ARS Uromyces appendicul... 30 7.4 2
(FE661871) UAHAUST_05C_F_F11 UaHaust_ARS Uromyces appendicul... 30 7.4 2
(ED624700) GM_WBa0021N01.r GM_WBa Glycine max genomic clone ... 30 7.4 2
(DX247532) OR_ABa0134B01.f OR_ABa Oryza ridleyi genomic clon... 36 8.1 2
(AC180287) Strongylocentrotus purpuratus clone R3-3121L15, W... 36 8.2 3
(AX458482) Sequence 28 from Patent WO0246454. 36 8.3 3
(AC154710) Mus musculus BAC clone RP24-357L12 from chromosom... 36 8.4 3
(CR384100) Zebrafish DNA sequence from clone DKEYP-22H2 in l... 38 9.2 3
(AX344551) Sequence 2 from Patent WO0200932. 38 9.5 4
(CT559408) A BAC library has been constructed from cultivar ... 34 9.7 2
(CR753903) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 38 10.0 3

>(AU263074) Dictyostelium discoideum vegetative cDNA clone:VSE396,
3' end single read.
Length = 317

Score = 212 bits (107), Expect(2) = e-102
Identities = 107/107 (100%)
Strand = Plus / Plus


Query: 158 gaaacccttacaaaagatgaataaaaatggtaagattaataatggaactaaaaataacca 217
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 158 gaaacccttacaaaagatgaataaaaatggtaagattaataatggaactaaaaataacca 217


Query: 218 aatattaccaaactttcctgataaccaaaataaataataataagttc 264
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 218 aatattaccaaactttcctgataaccaaaataaataataataagttc 264

Score = 194 bits (98), Expect(2) = e-102
Identities = 98/98 (100%)
Strand = Plus / Plus


Query: 1 attataatttacttgggatggggtgacagttggggggagaggggtatgatgattatttct 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 attataatttacttgggatggggtgacagttggggggagaggggtatgatgattatttct 60


Query: 61 ttccaccaataattataccaattaacattgcaaatcca 98
||||||||||||||||||||||||||||||||||||||
Sbjct: 61 ttccaccaataattataccaattaacattgcaaatcca 98

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 309,160,042
Number of extensions: 24468256
Number of successful extensions: 2071667
Number of sequences better than 10.0: 77
Length of query: 316
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 293
Effective length of database: 93,106,754,628
Effective search space: 27280279106004
Effective search space used: 27280279106004
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 6.22
Homology vs Protein
Query= Contig-U06632-1 (Contig-U06632-1Q) /CSM_Contig/Contig-U06632-1Q.Seq.d
(316 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

CP000102_1487(CP000102|pid:none) Methanosphaera stadtmanae DSM 3... 33 2.4
AE010300_3983(AE010300|pid:none) Leptospira interrogans serovar ... 32 9.0

>CP000102_1487(CP000102|pid:none) Methanosphaera stadtmanae DSM
3091, complete genome.
Length = 969

Score = 33.5 bits (75), Expect = 2.4
Identities = 15/45 (33%), Positives = 25/45 (55%)
Frame = -3

Query: 200 IINLTIFIHLL*GFLKKWKLSKIKP*NIQIILFIWICNVNWYNYW 66
I N+ I +L FL ++ + KIK N +I W+ +NW+ +W
Sbjct: 414 IYNINEDIDVLISFLNRYDIDKIKTKNSLLIKIAWV--INWFEWW 456

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: 370,558,003
Number of extensions: 5265428
Number of successful extensions: 10908
Number of sequences better than 10.0: 2
Number of HSP's gapped: 10905
Number of HSP's successfully gapped: 2
Length of query: 105
Length of database: 1,040,966,779
Length adjustment: 73
Effective length of query: 32
Effective length of database: 807,053,974
Effective search space: 25825727168
Effective search space used: 25825727168
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: 0.50 gvh: -0.01 alm: 0.74 top: 0.53 tms: 0.00 mit: 0.29 mip: 0.00
nuc: 0.00 erl: 0.00 erm: 0.00 pox: 0.00 px2: 0.00 vac: 0.33 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

60.0 %: nuclear
12.0 %: mitochondrial
12.0 %: cytoplasmic
8.0 %: cytoskeletal
4.0 %: vacuolar
4.0 %: plasma membrane

>> prediction for Contig-U06632-1 is nuc

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