Contig-U00839-1
Contig ID Contig-U00839-1
Contig update 2001. 8.29
Contig sequence
>Contig-U00839-1 (Contig-U00839-1Q) /CSM_Contig/Contig-U00839-1Q.Seq.d
CATTTTAGATTAGTTGGTGAAGCTCAAAAAGTTGATAGATTAATGGAAGT
TTTCTCAAAGAAATATTTCGATGATAATGATGCCACTGAATCGGGTGGTA
CCAATATAGNGGTCAATAAAGATTCAGTNTTCATTN

Gap no gap
Contig length 136
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 3438619
End point 3438483
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U00839
List of clone(s)

est1=CFG736F,1,137
Translated Amino Acid sequence
HFRLVGEAQKVDRLMEVFSKKYFDDNDATESGGTNIXVNKDSVFI


Translated Amino Acid sequence (All Frames)
Frame A:
HFRLVGEAQKVDRLMEVFSKKYFDDNDATESGGTNIXVNKDSVFI


Frame B:
ild*lvklkklid*wkfsqrnismimmplnrvvpi*xsikiqxsx


Frame C:
f*isw*ssks**ingsflkeifr***ch*igwyqyxgq*rfsxh


own update 2004. 6.21
Homology vs CSM-cDNA
Query= Contig-U00839-1 (Contig-U00839-1Q)
/CSM_Contig/Contig-U00839-1Q.Seq.d
(136 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U00839-1 (Contig-U00839-1Q) /CSM_Contig/Conti... 256 7e-69
Contig-U16145-1 (Contig-U16145-1Q) /CSM_Contig/Conti... 36 0.012
Contig-U14334-1 (Contig-U14334-1Q) /CSM_Contig/Conti... 34 0.049
Contig-U14190-1 (Contig-U14190-1Q) /CSM_Contig/Conti... 32 0.19
Contig-U15903-1 (Contig-U15903-1Q) /CSM_Contig/Conti... 30 0.76
Contig-U15166-1 (Contig-U15166-1Q) /CSM_Contig/Conti... 30 0.76
Contig-U12535-1 (Contig-U12535-1Q) /CSM_Contig/Conti... 30 0.76
Contig-U12419-1 (Contig-U12419-1Q) /CSM_Contig/Conti... 30 0.76
Contig-U12071-1 (Contig-U12071-1Q) /CSM_Contig/Conti... 30 0.76
Contig-U12057-1 (Contig-U12057-1Q) /CSM_Contig/Conti... 30 0.76

>Contig-U00839-1 (Contig-U00839-1Q) /CSM_Contig/Contig-U00839-1Q.Seq.d
Length = 136

Score = 256 bits (129), Expect = 7e-69
Identities = 135/135 (100%)
Strand = Plus / Plus


Query: 1 cattttagattagttggtgaagctcaaaaagttgatagattaatggaagttttctcaaag 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 cattttagattagttggtgaagctcaaaaagttgatagattaatggaagttttctcaaag 60


Query: 61 aaatatttcgatgataatgatgccactgaatcgggtggtaccaatatagnggtcaataaa 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 aaatatttcgatgataatgatgccactgaatcgggtggtaccaatatagnggtcaataaa 120


Query: 121 gattcagtnttcatt 135
|||||||||||||||
Sbjct: 121 gattcagtnttcatt 135


>Contig-U16145-1 (Contig-U16145-1Q) /CSM_Contig/Contig-U16145-1Q.Seq.d
Length = 1660

Score = 36.2 bits (18), Expect = 0.012
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 47 aagttttctcaaagaaat 64
||||||||||||||||||
Sbjct: 1236 aagttttctcaaagaaat 1253


>Contig-U14334-1 (Contig-U14334-1Q) /CSM_Contig/Contig-U14334-1Q.Seq.d
Length = 933

Score = 34.2 bits (17), Expect = 0.049
Identities = 29/33 (87%)
Strand = Plus / Plus


Query: 13 gttggtgaagctcaaaaagttgatagattaatg 45
|||||||||||| | |||||| ||||||||||
Sbjct: 592 gttggtgaagctttagaagttggtagattaatg 624


Database: CSM
Posted date: Jun 21, 2004 12:56 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: 2136
Number of Sequences: 8402
Number of extensions: 2136
Number of successful extensions: 736
Number of sequences better than 10.0: 58
length of query: 136
length of database: 8,075,542
effective HSP length: 15
effective length of query: 121
effective length of database: 7,949,512
effective search space: 961890952
effective search space used: 961890952
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 2009. 4.19
Homology vs DNA
Query= Contig-U00839-1 (Contig-U00839-1Q) /CSM_Contig/Contig-U00839-1Q.Seq.d
(136 letters)

Database: ddbj_A
102,105,510 sequences; 101,790,757,118 total letters

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

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

(AC116984) Dictyostelium discoideum chromosome 2 map 2567470... 256 2e-64 1
(BJ359406) Dictyostelium discoideum cDNA clone:ddc14h09, 5' ... 256 2e-64 1
(EW966801) HDLice3rdlarv_01_O07_T7 Headlice composite librar... 54 0.001 1
(AC185064) Bos taurus clone CH240-187F7, WORKING DRAFT SEQUE... 38 4.3 3
(AC192974) Pan troglodytes BAC clone CH251-628O2 from chromo... 42 4.7 1
(AM470197) Vitis vinifera contig VV78X040703.4, whole genome... 42 4.7 1
(AL121869) Human DNA sequence from clone RP13-138P15 on chro... 42 4.7 1
(CU633675) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 42 4.7 1
(CU633556) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 42 4.7 1
(AQ569880) HS_5357_A1_C01_T7A RPCI-11 Human Male BAC Library... 42 4.7 1
(EJ747200) 1092963008740 Global-Ocean-Sampling_GS-30-02-01-1... 42 4.7 1
(EJ744762) 1092962046373 Global-Ocean-Sampling_GS-30-02-01-1... 42 4.7 1
(EJ525053) 1092955180032 Global-Ocean-Sampling_GS-29-01-01-1... 42 4.7 1
(EI023853) bb09f10.f Dekkera bruxellensis Random Genomic Lib... 42 4.7 1
(DX537122) GH_MBb0055J16r GH_MBb Gossypium hirsutum genomic ... 42 4.7 1
(DX529884) GH_MBb0030K06r GH_MBb Gossypium hirsutum genomic ... 42 4.7 1
(DX521354) GH_MBb0048D21f GH_MBb Gossypium hirsutum genomic ... 42 4.7 1
(DX395489) GE__Sa0107B01.b1 Gossypium exiguum WGS library Go... 42 4.7 1
(DX395258) GE__Sa0074H07.b1 Gossypium exiguum WGS library Go... 42 4.7 1
(DX383570) TMB0689 Plasmid, BAC and BIBAC libraries from upl... 42 4.7 1
(AC165035) Bos taurus clone CH240-158J2, WORKING DRAFT SEQUE... 38 9.3 3
(AC214278) Populus trichocarpa clone ACSB1213-E16, complete ... 36 9.6 3

>(AC116984) Dictyostelium discoideum chromosome 2 map 2567470-3108875
strain AX4, complete sequence.
Length = 541399

Score = 256 bits (129), Expect = 2e-64
Identities = 133/135 (98%)
Strand = Plus / Plus


Query: 1 cattttagattagttggtgaagctcaaaaagttgatagattaatggaagttttctcaaag 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 307814 cattttagattagttggtgaagctcaaaaagttgatagattaatggaagttttctcaaag 307873


Query: 61 aaatatttcgatgataatgatgccactgaatcgggtggtaccaatatagnggtcaataaa 120
||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 307874 aaatatttcgatgataatgatgccactgaatcgggtggtaccaatatagtggtcaataaa 307933


Query: 121 gattcagtnttcatt 135
|||||||| ||||||
Sbjct: 307934 gattcagtattcatt 307948

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 143,413,514
Number of extensions: 8071602
Number of successful extensions: 2254702
Number of sequences better than 10.0: 22
Length of query: 136
Length of database: 101,790,757,118
Length adjustment: 22
Effective length of query: 114
Effective length of database: 99,544,435,898
Effective search space: 11348065692372
Effective search space used: 11348065692372
X1: 11 (21.8 bits)
S2: 20 (40.1 bits)

protein update 2009. 7.14
Homology vs Protein
Query= Contig-U00839-1 (Contig-U00839-1Q) /CSM_Contig/Contig-U00839-1Q.Seq.d
(136 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

AM477397_3(AM477397|pid:none) Vitis vinifera contig VV78X260201.... 41 0.011
(Q54KA7) RecName: Full=Ankyrin repeat, PH and SEC7 domain contai... 41 0.015
CP000849_474(CP000849|pid:none) Rickettsia bellii OSU 85-389, co... 40 0.019
T38792(T38792) probable protein transport protein sec7 homolog -... 39 0.043
AE014296_3669(AE014296|pid:none) Drosophila melanogaster chromos... 39 0.073
AY058333_1(AY058333|pid:none) Drosophila melanogaster GH10594 fu... 39 0.073
BT016033_1(BT016033|pid:none) Drosophila melanogaster RE02556 fu... 39 0.073
BT016080_1(BT016080|pid:none) Drosophila melanogaster LP01489 fu... 39 0.073
(Q9Y6D5) RecName: Full=Brefeldin A-inhibited guanine nucleotide-... 38 0.096
AY255526_1(AY255526|pid:none) Rattus norvegicus Brefeldin A-inhi... 38 0.096
AK302526_1(AK302526|pid:none) Homo sapiens cDNA FLJ55398 complet... 38 0.096
BT059417_1(BT059417|pid:none) Salmo salar clone ssal-rgf-541-375... 38 0.12
AB009054_21(AB009054|pid:none) Arabidopsis thaliana genomic DNA,... 38 0.12
AJ235271_145(AJ235271|pid:none) Rickettsia prowazekii strain Mad... 37 0.16
AM270122_6(AM270122|pid:none) Aspergillus niger contig An07c0040... 37 0.21
AE014134_3647(AE014134|pid:none) Drosophila melanogaster chromos... 37 0.28
AE014134_3648(AE014134|pid:none) Drosophila melanogaster chromos... 37 0.28
AE014134_2487(AE014134|pid:none) Drosophila melanogaster chromos... 37 0.28
AL606631_11(AL606631|pid:none) Oryza sativa genomic DNA, chromos... 37 0.28
AK109864_1(AK109864|pid:none) Oryza sativa Japonica Group cDNA c... 37 0.28
(Q15438) RecName: Full=Cytohesin-1; AltName: Full=PH, SEC7 and c... 37 0.28
AF125362_1(AF125362|pid:none) Homo sapiens cytohesin 1 gene, exo... 37 0.28
AE014134_2486(AE014134|pid:none) Drosophila melanogaster chromos... 37 0.28
AF125362_2(AF125362|pid:none) Homo sapiens cytohesin 1 gene, exo... 37 0.28
AM920435_164(AM920435|pid:none) Penicillium chrysogenum Wisconsi... 37 0.28
AY574952_1(AY574952|pid:none) Danio rerio cytohesin 1-like prote... 36 0.36
BT075092_1(BT075092|pid:none) Osmerus mordax clone omor-eva-508-... 36 0.36
BC074395_1(BC074395|pid:none) Xenopus laevis MGC84366 protein, m... 36 0.36
BT059690_1(BT059690|pid:none) Salmo salar clone ssal-rgf-001-101... 36 0.36
AK158216_1(AK158216|pid:none) Mus musculus adult inner ear cDNA,... 36 0.36
BC059497_1(BC059497|pid:none) Danio rerio zgc:73134, mRNA (cDNA ... 36 0.36
AB013464_1(AB013464|pid:none) Mus musculus CLM1-A mRNA for cytoh... 36 0.36
BC026481_1(BC026481|pid:none) Mus musculus IQ motif and Sec7 dom... 36 0.47
AL139396_8(AL139396|pid:none) Human DNA sequence from clone RP11... 36 0.47
AP008208_1129(AP008208|pid:none) Oryza sativa (japonica cultivar... 36 0.47
B87990(B87990) protein Y6B3A.1 [imported] - Caenorhabditis elega... 36 0.47
BC155699_1(BC155699|pid:none) Xenopus tropicalis hypothetical pr... 36 0.47
EU194251_1(EU194251|pid:none) Sus scrofa cytohesin 2 mRNA, compl... 36 0.47
(Q2KI41) RecName: Full=Cytohesin-2; AltName: Full=PH, SEC7 and c... 36 0.47
AB013467_1(AB013467|pid:none) Mus musculus CLM2-A mRNA for cytoh... 36 0.47
AB209573_1(AB209573|pid:none) Homo sapiens mRNA for pleckstrin h... 36 0.47
(Q8R0S2) RecName: Full=IQ motif and SEC7 domain-containing prote... 36 0.47
AM461845_1(AM461845|pid:none) Vitis vinifera contig VV78X136107.... 36 0.47
AP008209_903(AP008209|pid:none) Oryza sativa (japonica cultivar-... 36 0.47
BX571960_5(BX571960|pid:none) Zebrafish DNA sequence from clone ... 36 0.47
AP004789_16(AP004789|pid:none) Oryza sativa Japonica Group genom... 36 0.47
AB275281_1(AB275281|pid:none) Mus musculus mRNA for ARF6 guanine... 36 0.47
CR382125_987(CR382125|pid:none) Kluyveromyces lactis strain NRRL... 36 0.47
(Q5DU25) RecName: Full=IQ motif and SEC7 domain-containing prote... 36 0.47
BC010267_1(BC010267|pid:none) Homo sapiens IQ motif and Sec7 dom... 36 0.47
AB013469_2(AB013469|pid:none) Mus musculus CLM2 gene for cytohes... 36 0.47
AB018306_1(AB018306|pid:none) Homo sapiens mRNA for KIAA0763 pro... 36 0.47
(Q5JU85) RecName: Full=IQ motif and SEC7 domain-containing prote... 36 0.47
AB011094_1(AB011094|pid:none) Homo sapiens mRNA for KIAA0522 pro... 36 0.47
AB383981_1(AB383981|pid:none) Synthetic construct DNA, clone: pF... 36 0.47
AK095232_1(AK095232|pid:none) Homo sapiens cDNA FLJ37913 fis, cl... 36 0.47
U59752_1(U59752|pid:none) Human Sec7p-like protein mRNA, partial... 36 0.47
(O43739) RecName: Full=Cytohesin-3; AltName: Full=PH, SEC7 and c... 35 0.62
AK313728_1(AK313728|pid:none) Homo sapiens cDNA, FLJ94328, highl... 35 0.62
AM989984_65(AM989984|pid:none) Zygosaccharomyces rouxii strain C... 35 0.62
CP000053_585(CP000053|pid:none) Rickettsia felis URRWXCal2, comp... 35 0.62
BT021743_1(BT021743|pid:none) Bos taurus pleckstrin homology, Se... 35 0.62
AE017354_1911(AE017354|pid:none) Legionella pneumophila subsp. p... 35 0.62
CR382133_500(CR382133|pid:none) Debaryomyces hansenii strain CBS... 35 0.62
AK168566_1(AK168566|pid:none) Mus musculus 16 days embryo kidney... 35 0.62
(O08967) RecName: Full=Cytohesin-3; AltName: Full=PH, SEC7 and c... 35 0.62
AC004895_1(AC004895|pid:none) Homo sapiens PAC clone RP4-810E6 f... 35 0.62
BC125677_1(BC125677|pid:none) Xenopus tropicalis hypothetical pr... 35 0.62
AL022604_6(AL022604|pid:none) Arabidopsis thaliana DNA chromosom... 35 0.62
(Q80YW0) RecName: Full=Cytohesin-4; AltName: Full=PH, SEC7 and c... 35 0.81
AK304453_1(AK304453|pid:none) Homo sapiens cDNA FLJ54256 complet... 35 0.81
CT005271_254(CT005271|pid:none) Leishmania major strain Friedlin... 35 0.81
AP003539_28(AP003539|pid:none) Oryza sativa Japonica Group genom... 35 0.81
BC018505_1(BC018505|pid:none) Mus musculus cytohesin 4, mRNA (cD... 35 0.81
AK024428_1(AK024428|pid:none) Homo sapiens mRNA for FLJ00017 pro... 35 0.81
AK152306_1(AK152306|pid:none) Mus musculus bone marrow macrophag... 35 0.81
AK315052_1(AK315052|pid:none) Homo sapiens cDNA, FLJ96001, highl... 35 0.81
AP000366_16(AP000366|pid:none) Oryza sativa Japonica Group genom... 35 0.81
Z94160_8(Z94160|pid:none) Human DNA sequence from clone RP1-63G5... 35 0.81
(Q76M68) RecName: Full=IQ motif and SEC7 domain-containing prote... 35 1.1
CR533426_1(CR533426|pid:none) Paramecium tetraurelia, complete g... 35 1.1
CR954204_443(CR954204|pid:none) Ostreococcus tauri strain OTTH05... 35 1.1
AB050522_1(AB050522|pid:none) Macaca fascicularis brain cDNA, cl... 35 1.1
CU928180_587(CU928180|pid:none) Kluyveromyces thermotolerans str... 35 1.1
AC115680_13(AC115680|pid:none) Dictyostelium discoideum chromoso... 35 1.1
AK122446_1(AK122446|pid:none) Mus musculus mRNA for mKIAA1110 pr... 35 1.1
AC079933_9(AC079933|pid:none) Trypanosoma brucei chromosome 4 cl... 35 1.1
CR954217_38(CR954217|pid:none) Ostreococcus tauri strain OTTH059... 35 1.1
AL928990_2(AL928990|pid:none) Zebrafish DNA sequence from clone ... 34 1.4
CP001330_76(CP001330|pid:none) Micromonas sp. RCC299 chromosome ... 34 1.4
AC020622_9(AC020622|pid:none) Sequence of BAC F22M8 from Arabido... 34 1.4
CR954210_109(CR954210|pid:none) Ostreococcus tauri strain OTTH05... 34 1.4
(P39993) RecName: Full=ARF guanine-nucleotide exchange factor 2;... 34 1.4
AL035538_32(AL035538|pid:none) Arabidopsis thaliana DNA chromoso... 34 1.4
(P47102) RecName: Full=ARF guanine-nucleotide exchange factor 1;... 34 1.8
AY144827_1(AY144827|pid:none) Saccharomyces bayanus clone Contig... 34 1.8
CU638743_43(CU638743|pid:none) Podospora anserina genomic DNA ch... 34 1.8
AE016820_224(AE016820|pid:none) Ashbya gossypii (= Eremothecium ... 34 1.8
AP007151_372(AP007151|pid:none) Aspergillus oryzae RIB40 genomic... 34 1.8
CU928170_387(CU928170|pid:none) Kluyveromyces thermotolerans str... 34 1.8
AE017344_239(AE017344|pid:none) Cryptococcus neoformans var. neo... 34 1.8
CP000502_112(CP000502|pid:none) Pichia stipitis CBS 6054 chromos... 34 1.8
CR533425_1(CR533425|pid:none) Paramecium tetraurelia, complete g... 33 2.4
FM992690_450(FM992690|pid:none) Candida dubliniensis CD36 chromo... 33 2.4
AK155320_1(AK155320|pid:none) Mus musculus NOD-derived CD11c +ve... 33 3.1
CR533427_1(CR533427|pid:none) Paramecium tetraurelia, complete g... 33 3.1
AK220345_1(AK220345|pid:none) Mus musculus mRNA for mKIAA0522 pr... 33 4.0
AY144825_1(AY144825|pid:none) Saccharomyces bayanus clone Contig... 33 4.0
CR940353_800(CR940353|pid:none) Theileria annulata strain Ankara... 33 4.0
CR628337_1929(CR628337|pid:none) Legionella pneumophila str. Len... 33 4.0
FJ168554_1(FJ168554|pid:none) Bodo saltans clone fosmid 5M18, co... 32 5.2
CR380951_26(CR380951|pid:none) Candida glabrata strain CBS138 ch... 32 5.2
J03918_1(J03918|pid:none) Yeast (S.cerevisaie) Sec7 gene encodin... 32 5.2
AM494957_195(AM494957|pid:none) Leishmania braziliensis chromoso... 32 6.9
CP000596_44(CP000596|pid:none) Ostreococcus lucimarinus CCE9901 ... 32 9.0

>AM477397_3(AM477397|pid:none) Vitis vinifera contig VV78X260201.39,
whole genome shotgun sequence.
Length = 1366

Score = 41.2 bits (95), Expect = 0.011
Identities = 19/44 (43%), Positives = 30/44 (68%)
Frame = +1

Query: 4 FRLVGEAQKVDRLMEVFSKKYFDDNDATESGGTNIXVNKDSVFI 135
FRL GE+QK+ R++E FS++++D + I V+KD+VFI
Sbjct: 570 FRLPGESQKIQRILEAFSERFYDQQ------SSEIFVSKDAVFI 607

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: 190,823,846
Number of extensions: 2757402
Number of successful extensions: 7713
Number of sequences better than 10.0: 115
Number of HSP's gapped: 7713
Number of HSP's successfully gapped: 115
Length of query: 45
Length of database: 1,051,180,864
Length adjustment: 19
Effective length of query: 26
Effective length of database: 989,686,243
Effective search space: 25731842318
Effective search space used: 25731842318
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: 25 (14.2 bits)

PSORT

psg: 0.60 gvh: 0.14 alm: 0.58 top: 0.53 tms: 0.00 mit: 0.25 mip: 0.02
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 %: nuclear
32.0 %: cytoplasmic
12.0 %: mitochondrial
8.0 %: cytoskeletal

>> prediction for Contig-U00839-1 is nuc

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