Contig-U06298-1
Contig ID Contig-U06298-1
Contig update 2001. 8.30
Contig sequence
>Contig-U06298-1 (Contig-U06298-1Q) /CSM_Contig/Contig-U06298-1Q.Seq.d
CAGATTTTGAAGGTGGTGGTGATGATGGTGGTTATGAAGAGTTTGATGAG
GGAGGTGGTTTTGAAGAGGAATATGTTGAAGAAACAGAAACAACAGAGGC
ATATACAGATATTATTGATCCTTCAGCAGATGCAAATACAGCAGAAGCAG
GTAGAATTCCAAATCACCTTAGGAAAACAACAAGATACATGACAAAATAC
GAAAGAGCTAGATTACTTGGTTCAAGAGCATTACAAATTAGTATGAATGC
ACCAATCATGGTAGAATTAGAAGGTGAAACTGATCCATTACAAATTGCTT
GGAAAGAATTAAGAGCAAAGAAAATTCCATTAATTATTAGAAGATTCCTT
CCAAATGGAATGTACGAAGATTGGAGTGTAGATGAACTTTCAATTTAAAT
TAAATATATAAATACACACTTAAAAAACTACAAAAACCAACAAAAAAAAA
AAAAAATCTCAAATTAATATTACATATTTATGCATTATAATTAAACCAAA
TCAAAAAAAAAAAAAAAAAAAAAAAAAGCGAATTTCAACCCATTTGAAAT
AATAAAGAAAAGAAATTTAAAAAAAAGAAATAAAATAAAATAAAAAAAGC
AAAAATCAATTGATATTTAAAATTAATTGATTGTATTAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
A

Gap no gap
Contig length 701
Chromosome number (1..6, M) 5
Chromosome length 5062330
Start point 4775210
End point 4774509
Strand (PLUS/MINUS) MINUS
Number of clones 3
Number of EST 3
Link to clone list U06298
List of clone(s)

est1=VSE573E,1,510
est2=VSA688E,36,185
est3=VSB638E,447,702
Translated Amino Acid sequence
DFEGGGDDGGYEEFDEGGGFEEEYVEETETTEAYTDIIDPSADANTAEAGRIPNHLRKTT
RYMTKYERARLLGSRALQISMNAPIMVELEGETDPLQIAWKELRAKKIPLIIRRFLPNGM
YEDWSVDELSI*ikyinthlknyknqqkkkkisn*yyifmhyn*tkskkkkkkkkanfnp
feiikkrnlkkrnkik*kkqksidi*n*livlkkkkkkkkkkkkkkkkkkkkk


Translated Amino Acid sequence (All Frames)
Frame A:
qilkvvvmmvvmkslmrevvlkrnmlkkqkqqrhiqillilqqmqiqqkqvefqitlgkq
qdt*qntkeldylvqehyklv*mhqsw*n*kvklihykllgkn*eqrkfh*lledsfqme
ctkigv*mnfqfklni*iht*kttktnkkkkksqinitylciiikpnqkkkkkkkkrist
hlk**rkei*kkeik*nkksknqlifkin*ly*kkkkkkkkkkkkkkkkkkkk


Frame B:
rf*rww**wwl*rv**grwf*rgic*rnrnnrgiyryy*sfsrckysrsr*nsksp*enn
kihdkirks*itwfksitn*yectnhgrirr*n*sitnclerikskensiny*kipskwn
vrrlecr*tfnln*iykytlkklqkptkkkknlklilhiyal*lnqikkkkkkkksefqp
i*nnkekkfkkkk*nkikkakin*ylklidcikkkkkkkkkkkkkkkkkkkkk


Frame C:
DFEGGGDDGGYEEFDEGGGFEEEYVEETETTEAYTDIIDPSADANTAEAGRIPNHLRKTT
RYMTKYERARLLGSRALQISMNAPIMVELEGETDPLQIAWKELRAKKIPLIIRRFLPNGM
YEDWSVDELSI*ikyinthlknyknqqkkkkisn*yyifmhyn*tkskkkkkkkkanfnp
feiikkrnlkkrnkik*kkqksidi*n*livlkkkkkkkkkkkkkkkkkkkkk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U06298-1 (Contig-U06298-1Q)
/CSM_Contig/Contig-U06298-1Q.Seq.d
(701 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U06298-1 (Contig-U06298-1Q) /CSM_Contig/Conti... 835 0.0
Contig-U13284-1 (Contig-U13284-1Q) /CSM_Contig/Conti... 42 8e-04
Contig-U13367-1 (Contig-U13367-1Q) /CSM_Contig/Conti... 40 0.003
Contig-U12380-1 (Contig-U12380-1Q) /CSM_Contig/Conti... 40 0.003
Contig-U14680-1 (Contig-U14680-1Q) /CSM_Contig/Conti... 38 0.012
Contig-U12447-1 (Contig-U12447-1Q) /CSM_Contig/Conti... 38 0.012
Contig-U14872-1 (Contig-U14872-1Q) /CSM_Contig/Conti... 36 0.049
Contig-U12860-1 (Contig-U12860-1Q) /CSM_Contig/Conti... 36 0.049
Contig-U12716-1 (Contig-U12716-1Q) /CSM_Contig/Conti... 36 0.049
Contig-U06588-1 (Contig-U06588-1Q) /CSM_Contig/Conti... 36 0.049

>Contig-U06298-1 (Contig-U06298-1Q) /CSM_Contig/Contig-U06298-1Q.Seq.d
Length = 701

Score = 835 bits (421), Expect = 0.0
Identities = 421/421 (100%)
Strand = Plus / Plus


Query: 1 cagattttgaaggtggtggtgatgatggtggttatgaagagtttgatgagggaggtggtt 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 cagattttgaaggtggtggtgatgatggtggttatgaagagtttgatgagggaggtggtt 60


Query: 61 ttgaagaggaatatgttgaagaaacagaaacaacagaggcatatacagatattattgatc 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 ttgaagaggaatatgttgaagaaacagaaacaacagaggcatatacagatattattgatc 120


Query: 121 cttcagcagatgcaaatacagcagaagcaggtagaattccaaatcaccttaggaaaacaa 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 cttcagcagatgcaaatacagcagaagcaggtagaattccaaatcaccttaggaaaacaa 180


Query: 181 caagatacatgacaaaatacgaaagagctagattacttggttcaagagcattacaaatta 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 caagatacatgacaaaatacgaaagagctagattacttggttcaagagcattacaaatta 240


Query: 241 gtatgaatgcaccaatcatggtagaattagaaggtgaaactgatccattacaaattgctt 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 gtatgaatgcaccaatcatggtagaattagaaggtgaaactgatccattacaaattgctt 300


Query: 301 ggaaagaattaagagcaaagaaaattccattaattattagaagattccttccaaatggaa 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 ggaaagaattaagagcaaagaaaattccattaattattagaagattccttccaaatggaa 360


Query: 361 tgtacgaagattggagtgtagatgaactttcaatttaaattaaatatataaatacacact 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tgtacgaagattggagtgtagatgaactttcaatttaaattaaatatataaatacacact 420


Query: 421 t 421
|
Sbjct: 421 t 421


Score = 91.7 bits (46), Expect = 1e-18
Identities = 46/46 (100%)
Strand = Plus / Plus


Query: 457 tctcaaattaatattacatatttatgcattataattaaaccaaatc 502
||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 457 tctcaaattaatattacatatttatgcattataattaaaccaaatc 502


Score = 63.9 bits (32), Expect = 2e-10
Identities = 32/32 (100%)
Strand = Plus / Plus


Query: 606 tcaattgatatttaaaattaattgattgtatt 637
||||||||||||||||||||||||||||||||
Sbjct: 606 tcaattgatatttaaaattaattgattgtatt 637


Score = 36.2 bits (18), Expect = 0.049
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 528 gcgaatttcaacccattt 545
||||||||||||||||||
Sbjct: 528 gcgaatttcaacccattt 545


>Contig-U13284-1 (Contig-U13284-1Q) /CSM_Contig/Contig-U13284-1Q.Seq.d
Length = 561

Score = 42.1 bits (21), Expect = 8e-04
Identities = 21/21 (100%)
Strand = Plus / Plus


Query: 10 aaggtggtggtgatgatggtg 30
|||||||||||||||||||||
Sbjct: 30 aaggtggtggtgatgatggtg 50


>Contig-U13367-1 (Contig-U13367-1Q) /CSM_Contig/Contig-U13367-1Q.Seq.d
Length = 602

Score = 40.1 bits (20), Expect = 0.003
Identities = 23/24 (95%)
Strand = Plus / Minus


Query: 14 tggtggtgatgatggtggttatga 37
||||||||||||||||||| ||||
Sbjct: 218 tggtggtgatgatggtggtgatga 195


Score = 34.2 bits (17), Expect = 0.19
Identities = 17/17 (100%)
Strand = Plus / Minus


Query: 14 tggtggtgatgatggtg 30
|||||||||||||||||
Sbjct: 206 tggtggtgatgatggtg 190


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: 9307
Number of Sequences: 6905
Number of extensions: 9307
Number of successful extensions: 1232
Number of sequences better than 10.0: 166
length of query: 701
length of database: 5,674,871
effective HSP length: 16
effective length of query: 685
effective length of database: 5,564,391
effective search space: 3811607835
effective search space used: 3811607835
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 2008.11. 8
Homology vs DNA
Query= Contig-U06298-1 (Contig-U06298-1Q) /CSM_Contig/Contig-U06298-1Q.Seq.d
(701 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

(AU263209) Dictyostelium discoideum vegetative cDNA clone:VS... 835 0.0 2
(AU261661) Dictyostelium discoideum vegetative cDNA clone:VS... 285 1e-72 1
(EE133340) SiJWA08ADK Lausanne fire ant library Solenopsis i... 70 2e-16 2
(EE147225) SiJWA11BCW2 Lausanne fire ant library Solenopsis ... 70 2e-16 2
(EE135511) SiJWG03BAL Lausanne fire ant library Solenopsis i... 70 2e-16 2
(EE141156) SiJWG10CAP Lausanne fire ant library Solenopsis i... 70 2e-16 2
(EE142395) SiJWC03BCA2 Lausanne fire ant library Solenopsis ... 70 2e-16 2
(EE136133) SiJWA03BAG Lausanne fire ant library Solenopsis i... 70 3e-16 2
(EE129037) SiJWE03AA1.tag5_E03_09 Lausanne fire ant library ... 66 4e-15 2
(DB614072) Halocynthia roretzi cDNA clone:mae36f03, 5' end. 74 8e-13 2
(CN775593) tae83b04.y1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(CN774585) tae83b04.x1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(CN772955) tae01h05.y1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(CN631724) taf43e03.y1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(CN631424) taf43e03.x1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(CN624543) tae10d12.y1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(CN624323) tae10d12.x1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(CN554113) tae33c08.y1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(CN553846) tae33c08.x1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(CN552981) tae42g06.y1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(CN552721) tae42g06.x1 Hydra EST Darmstadt I Hydra magnipapi... 80 1e-10 1
(DB613622) Halocynthia roretzi cDNA clone:mae34i16, 5' end. 72 1e-10 2
(CR380953) Candida glabrata strain CBS138 chromosome G compl... 58 1e-10 2
(FC826605) CBHI1219.fwd CBHI Metridium senile tentacle Metri... 50 3e-09 2
(FC826604) CBHI1219.rev CBHI Metridium senile tentacle Metri... 50 3e-09 2
(DV184407) CT035_D03_CT035_3700_90.ab1 C. tentans tissue cul... 68 6e-09 2
(EY534476) CAPF8509.fwd CAPF Capitella sp. I ECS-2004 whole ... 60 1e-08 2
(EY534475) CAPF8509.rev CAPF Capitella sp. I ECS-2004 whole ... 60 1e-08 2
(DY447163) HSAA-aaa10g10.g1 UCI-11 Hydra vulgaris cDNA 5' si... 72 3e-08 1
(CV182174) tai81g08.y1 Hydra EST UCI 5 ALP Hydra magnipapill... 72 3e-08 1
(CN555710) tae15h09.y1 Hydra EST Darmstadt I Hydra magnipapi... 72 3e-08 1
(CN555375) tae15h09.x1 Hydra EST Darmstadt I Hydra magnipapi... 72 3e-08 1
(CA303097) taa03b06.y1 Hydra cDNA library Hydra magnipapilla... 72 3e-08 1
(CN584469) USDA-FP_127537 Acyrthosiphon pisum, Pea Aphid Acy... 70 1e-07 1
(CF587594) USDA-FP_120500-083 Acyrthosiphon pisum, Pea Aphid... 70 1e-07 1
(FF337231) 280466192 Pea aphid whole body normalized full le... 70 1e-07 1
(FF336471) 280461392 Pea aphid whole body normalized full le... 70 1e-07 1
(FF335374) 280458541 Pea aphid whole body normalized full le... 70 1e-07 1
(FF334015) 280456045 Pea aphid whole body normalized full le... 70 1e-07 1
(FF322422) 280415423 Pea aphid whole body normalized full le... 70 1e-07 1
(FF321499) 280410591 Pea aphid whole body normalized full le... 70 1e-07 1
(FF302261) 279351292 Pea aphid whole body normalized full le... 70 1e-07 1
(FF298521) 279326314 Pea aphid whole body normalized full le... 70 1e-07 1
(FF298315) 279322167 Pea aphid whole body normalized full le... 70 1e-07 1
(FF297665) 279317586 Pea aphid whole body normalized full le... 70 1e-07 1
(FF296694) 279312550 Pea aphid whole body normalized full le... 70 1e-07 1
(FF296305) 279311634 Pea aphid whole body normalized full le... 70 1e-07 1
(FF296282) 279312440 Pea aphid whole body normalized full le... 70 1e-07 1
(FF294779) 279302529 Pea aphid whole body normalized full le... 70 1e-07 1
(FF294136) 279298085 Pea aphid whole body normalized full le... 70 1e-07 1
(FF292411) 279286178 Pea aphid whole body normalized full le... 70 1e-07 1
(FF292279) 279281117 Pea aphid whole body normalized full le... 70 1e-07 1
(EX638350) 256621104 Pea aphid whole body normalized full le... 70 1e-07 1
(EX637554) 256614852 Pea aphid whole body normalized full le... 70 1e-07 1
(EX631751) 255535716 Pea aphid whole body normalized full le... 70 1e-07 1
(EX631375) 255529736 Pea aphid whole body normalized full le... 70 1e-07 1
(EX629470) 255457643 Pea aphid whole body normalized full le... 70 1e-07 1
(EX629195) 255457937 Pea aphid whole body normalized full le... 70 1e-07 1
(EX628644) 255451566 Pea aphid whole body normalized full le... 70 1e-07 1
(EX627972) 255451220 Pea aphid whole body normalized full le... 70 1e-07 1
(EX617561) 255399657 Pea aphid whole body normalized full le... 70 1e-07 1
(EX617179) 255399294 Pea aphid whole body normalized full le... 70 1e-07 1
(EX612424) 255379746 Pea aphid whole body normalized full le... 70 1e-07 1
(EX610218) 255373035 Pea aphid whole body normalized full le... 70 1e-07 1
(EX604281) 255344319 Pea aphid whole body normalized full le... 70 1e-07 1
(EX602683) 255333296 Pea aphid whole body normalized full le... 70 1e-07 1
(CB887369) Lice_03_H21_T3 Body louse cDNA library Pediculus ... 68 5e-07 1
(FE343887) CAOF4631.rev CAOF_Daphnia_pulex_Log50_Library_12 ... 54 1e-06 2
(FE343888) CAOF4631.fwd CAOF_Daphnia_pulex_Log50_Library_12 ... 54 1e-06 2
(DJ025884) Genome-wide DNA marker of Saccharomyces cerevisiae. 50 2e-06 2
(AB293444) Saccharomyces cerevisiae gene for aquaporin Aqy1,... 50 2e-06 2
(U25841) Saccharomyces cerevisiae chromosome XVI cosmid 9677. 50 2e-06 2
(DR394357) USDA-FP_154291 Adult Alate Aphis gossypii (WHAGA)... 66 2e-06 1
(M33924) S.cerevisiae RNA polymerase II sixth subunit (RP026... 50 2e-06 2
(X53288) S.cerevisiae DNA for RNA polymerase, RPB6 subunit. 50 2e-06 2
(DB668371) Saccharomyces cerevisiae mRNA, clone: Y116_K20_F.... 50 2e-06 2
(DQ333180) Synthetic construct Saccharomyces cerevisiae clon... 50 2e-06 2
(EA397407) Sequence 46231 from patent US 7314974. 50 2e-06 2
(DJ320590) Method for identification of useful proteins deri... 50 2e-06 2
(AX831776) Sequence 2496 from Patent WO03072602. 50 2e-06 2
(AX820746) Sequence 2496 from Patent EP1338608. 50 2e-06 2
(AX596442) Sequence 2096 from Patent EP1258494. 50 2e-06 2
(DT602917) wmi03-5ms1-b05 Wmi03 Welwitschia mirabilis cDNA c... 54 8e-06 2
(DT587023) wmi03-2ms4-e10 Wmi03 Welwitschia mirabilis cDNA c... 54 8e-06 2
(CP000102) Methanosphaera stadtmanae DSM 3091, complete genome. 62 3e-05 1
(ES632743) NGPU808TR NGPP Nasonia giraulti cDNA, mRNA sequence. 54 6e-05 2
(H52891) SW3ICA435SK Brugia malayi infective larva cDNA (SAW... 50 6e-05 3
(ES621540) NGPE821TR NGPA Nasonia giraulti cDNA, mRNA sequence. 54 6e-05 2
(FD450427) EGGA534TR Haematobia irritans eggs Haematobia irr... 40 8e-05 3
(FD450426) EGGA534TF Haematobia irritans eggs Haematobia irr... 40 9e-05 3
(FD452716) EGGAJ28TF Haematobia irritans eggs Haematobia irr... 40 9e-05 3
(EV425613) 210757143 NVP Nasonia vitripennis cDNA clone 228K... 54 1e-04 2
(AU262153) Dictyostelium discoideum vegetative cDNA clone:VS... 60 1e-04 1
(CV191473) vco01-3ms1-h07 Vco01 Vaccinium corymbosum cDNA cl... 60 1e-04 1
(FC750925) CBBI5440.rev CBBI Lottia gigantea 26h,37h,61h Lar... 60 1e-04 1
(DB648777) Saccharomyces cerevisiae mRNA, clone: S03052-58_L... 50 1e-04 2
(AI151551) SWOvAFCAP04B05SK Onchocerca volvulus adult female... 48 2e-04 2
(AX489194) Sequence 6494 from Patent WO02053728. 50 2e-04 2
(CT766569) Paramecium tetraurelia 5-PRIME EST from clone LK0... 52 2e-04 2
(CT807520) Paramecium tetraurelia 5-PRIME EST from clone LK0... 52 2e-04 2

>(AU263209) Dictyostelium discoideum vegetative cDNA clone:VSE573,
3' end single read.
Length = 510

Score = 835 bits (421), Expect(2) = 0.0
Identities = 421/421 (100%)
Strand = Plus / Plus


Query: 1 cagattttgaaggtggtggtgatgatggtggttatgaagagtttgatgagggaggtggtt 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 cagattttgaaggtggtggtgatgatggtggttatgaagagtttgatgagggaggtggtt 60


Query: 61 ttgaagaggaatatgttgaagaaacagaaacaacagaggcatatacagatattattgatc 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 ttgaagaggaatatgttgaagaaacagaaacaacagaggcatatacagatattattgatc 120


Query: 121 cttcagcagatgcaaatacagcagaagcaggtagaattccaaatcaccttaggaaaacaa 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 cttcagcagatgcaaatacagcagaagcaggtagaattccaaatcaccttaggaaaacaa 180


Query: 181 caagatacatgacaaaatacgaaagagctagattacttggttcaagagcattacaaatta 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 caagatacatgacaaaatacgaaagagctagattacttggttcaagagcattacaaatta 240


Query: 241 gtatgaatgcaccaatcatggtagaattagaaggtgaaactgatccattacaaattgctt 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 gtatgaatgcaccaatcatggtagaattagaaggtgaaactgatccattacaaattgctt 300


Query: 301 ggaaagaattaagagcaaagaaaattccattaattattagaagattccttccaaatggaa 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 ggaaagaattaagagcaaagaaaattccattaattattagaagattccttccaaatggaa 360


Query: 361 tgtacgaagattggagtgtagatgaactttcaatttaaattaaatatataaatacacact 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tgtacgaagattggagtgtagatgaactttcaatttaaattaaatatataaatacacact 420


Query: 421 t 421
|
Sbjct: 421 t 421

Score = 91.7 bits (46), Expect(2) = 0.0
Identities = 46/46 (100%)
Strand = Plus / Plus


Query: 457 tctcaaattaatattacatatttatgcattataattaaaccaaatc 502
||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 457 tctcaaattaatattacatatttatgcattataattaaaccaaatc 502

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 622,596,366
Number of extensions: 40186170
Number of successful extensions: 3722896
Number of sequences better than 10.0: 770
Length of query: 701
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 677
Effective length of database: 97,308,875,965
Effective search space: 65878109028305
Effective search space used: 65878109028305
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 6.21
Homology vs Protein
Query= Contig-U06298-1 (Contig-U06298-1Q) /CSM_Contig/Contig-U06298-1Q.Seq.d
(701 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

(Q54FA8) RecName: Full=DNA-directed RNA polymerases I, II, and I... 200 4e-50
EU961316_1(EU961316|pid:none) Zea mays clone 234477 DNA-directed... 128 1e-28
EU965129_1(EU965129|pid:none) Zea mays clone 283994 DNA-directed... 128 1e-28
EU952422_1(EU952422|pid:none) Zea mays clone 1280043 DNA-directe... 128 1e-28
BT038134_1(BT038134|pid:none) Zea mays full-length cDNA clone ZM... 128 1e-28
CR954202_41(CR954202|pid:none) Ostreococcus tauri strain OTTH059... 128 1e-28
AC133003_25(AC133003|pid:none) Oryza sativa chromosome 3 BAC OSJ... 127 3e-28
AK121807_1(AK121807|pid:none) Oryza sativa Japonica Group cDNA c... 127 3e-28
(P36595) RecName: Full=DNA-directed RNA polymerases I, II, and I... 126 6e-28
AM920431_1031(AM920431|pid:none) Penicillium chrysogenum Wiscons... 126 7e-28
AF153277_1(AF153277|pid:none) Nicotiana tabacum DNA-directed RNA... 125 1e-27
CP000582_393(CP000582|pid:none) Ostreococcus lucimarinus CCE9901... 125 1e-27
EZ000466_1(EZ000466|pid:none) TSA: Culex tarsalis Ctar-320 DNA-d... 125 2e-27
BT070563_1(BT070563|pid:none) Picea sitchensis clone WS02736_E08... 125 2e-27
EF084858_1(EF084858|pid:none) Picea sitchensis clone WS02814_G02... 125 2e-27
BC086273_1(BC086273|pid:none) Xenopus laevis hypothetical LOC495... 123 6e-27
(P20435) RecName: Full=DNA-directed RNA polymerases I, II, and I... 123 6e-27
BC077687_1(BC077687|pid:none) Xenopus tropicalis polymerase (RNA... 123 6e-27
CP000499_264(CP000499|pid:none) Pichia stipitis CBS 6054 chromos... 123 6e-27
BC076264_1(BC076264|pid:none) Danio rerio zgc:92790, mRNA (cDNA ... 123 6e-27
CR380953_427(CR380953|pid:none) Candida glabrata strain CBS138 c... 122 8e-27
AE016818_67(AE016818|pid:none) Ashbya gossypii (= Eremothecium g... 122 1e-26
BT057259_1(BT057259|pid:none) Salmo salar clone ssal-evf-518-170... 122 1e-26
CU928176_30(CU928176|pid:none) Zygosaccharomyces rouxii strain C... 122 1e-26
BT056477_1(BT056477|pid:none) Salmo salar clone ssal-evf-576-011... 122 1e-26
FM992692_309(FM992692|pid:none) Candida dubliniensis CD36 chromo... 122 1e-26
BT082552_1(BT082552|pid:none) Anoplopoma fimbria clone afim-evh-... 121 2e-26
AJ251211_1(AJ251211|pid:none) Gallus gallus mRNA for RNA polymer... 120 3e-26
AK311831_1(AK311831|pid:none) Homo sapiens cDNA, FLJ92093, highl... 120 3e-26
DQ215323_1(DQ215323|pid:none) Taeniopygia guttata clone 0058P000... 120 3e-26
(O88828) RecName: Full=DNA-directed RNA polymerases I, II, and I... 120 3e-26
AX972042_1(AX972042|pid:none) Sequence 2845 from Patent EP110480... 120 3e-26
(P61217) RecName: Full=DNA-directed RNA polymerases I, II, and I... 120 3e-26
(Q32PE0) RecName: Full=DNA-directed RNA polymerases I, II, and I... 120 3e-26
BT075329_1(BT075329|pid:none) Osmerus mordax clone omor-eva-513-... 120 4e-26
AB015478_2(AB015478|pid:none) Arabidopsis thaliana genomic DNA, ... 120 4e-26
AE017349_172(AE017349|pid:none) Cryptococcus neoformans var. neo... 120 5e-26
CR382122_142(CR382122|pid:none) Kluyveromyces lactis strain NRRL... 119 7e-26
AK165600_1(AK165600|pid:none) Mus musculus B cells CRL-1669 BCL1... 119 9e-26
CR382137_407(CR382137|pid:none) Debaryomyces hansenii strain CBS... 119 1e-25
AC006955_33(AC006955|pid:none) Arabidopsis thaliana chromosome 2... 118 2e-25
AX970489_1(AX970489|pid:none) Sequence 1292 from Patent EP1104808. 118 2e-25
AY815928_1(AY815928|pid:none) Schistosoma japonicum SJCHGC05009 ... 118 2e-25
FN357544_14(FN357544|pid:none) Schistosoma mansoni genome sequen... 117 3e-25
EU967192_1(EU967192|pid:none) Zea mays clone 300171 unknown mRNA. 117 3e-25
CP001329_74(CP001329|pid:none) Micromonas sp. RCC299 chromosome ... 116 6e-25
CU633900_847(CU633900|pid:none) Podospora anserina genomic DNA c... 115 2e-24
(Q17684) RecName: Full=Probable DNA-directed RNA polymerases I, ... 114 4e-24
(A8WSV7) RecName: Full=Probable DNA-directed RNA polymerases I, ... 112 1e-23
CT005271_93(CT005271|pid:none) Leishmania major strain Friedlin,... 107 3e-22
AM494957_86(AM494957|pid:none) Leishmania braziliensis chromosom... 107 3e-22
AY223192_1(AY223192|pid:none) Schistosoma japonicum clone ZZD193... 99 1e-19
AL844502_31(AL844502|pid:none) Plasmodium falciparum 3D7 chromos... 94 4e-18
AF165818_128(AF165818|pid:none) Guillardia theta nucleomorph chr... 93 9e-18
AY003872_17(AY003872|pid:none) Plasmodium vivax YAC 1H14, comple... 92 2e-17
AM910990_374(AM910990|pid:none) Plasmodium knowlesi strain H chr... 91 3e-17
CR940353_424(CR940353|pid:none) Theileria annulata strain Ankara... 90 6e-17
AC141114_24(AC141114|pid:none) Medicago truncatula clone mth2-8g... 87 6e-16
AL590448_32(AL590448|pid:none) chromosome VIII of strain GB-M1 o... 85 2e-15
AF510645_1(AF510645|pid:none) Giardia intestinalis RNA polymeras... 82 2e-14
BT079291_1(BT079291|pid:none) Esox lucius clone eluc-evq-517-308... 81 3e-14
AL031587_4(AL031587|pid:none) Human DNA sequence from clone RP5-... 79 1e-13
AL031587_5(AL031587|pid:none) Human DNA sequence from clone RP5-... 78 3e-13
EU974429_1(EU974429|pid:none) Zea mays clone 448989 unknown mRNA. 68 3e-10
AY316120_16(AY316120|pid:none) Uncultured crenarchaeote DeepAnt-... 66 1e-09
(Q5UQ32) RecName: Full=DNA-directed RNA polymerase subunit 6; ... 66 1e-09
AX969941_1(AX969941|pid:none) Sequence 744 from Patent EP1104808. 64 3e-09
(A1RWX0) RecName: Full=DNA-directed RNA polymerase subunit K; ... 62 2e-08
(Q8TT40) RecName: Full=DNA-directed RNA polymerase subunit K; ... 60 5e-08
(O26148) RecName: Full=DNA-directed RNA polymerase subunit K; ... 60 6e-08
CP000866_928(CP000866|pid:none) Nitrosopumilus maritimus SCM1, c... 57 7e-07
(A2SSV2) RecName: Full=DNA-directed RNA polymerase subunit K; ... 56 1e-06
CP000562_1799(CP000562|pid:none) Methanoculleus marisnigri JR1, ... 55 2e-06
(O29134) RecName: Full=DNA-directed RNA polymerase subunit K; ... 55 2e-06
(Q97ZJ9) RecName: Full=DNA-directed RNA polymerase subunit K; ... 54 4e-06
CP000493_884(CP000493|pid:none) Hyperthermus butylicus DSM 5456,... 54 6e-06
CP000254_2805(CP000254|pid:none) Methanospirillum hungatei JF-1,... 53 8e-06
CP000102_832(CP000102|pid:none) Methanosphaera stadtmanae DSM 30... 53 8e-06
CP000477_467(CP000477|pid:none) Methanosaeta thermophila PT, com... 53 8e-06
AM114193_2812(AM114193|pid:none) Uncultured methanogenic archaeo... 53 8e-06
CP001400_1176(CP001400|pid:none) Sulfolobus islandicus M.14.25, ... 52 2e-05
CP000300_2219(CP000300|pid:none) Methanococcoides burtonii DSM 6... 51 3e-05
(B0R4Y7) RecName: Full=DNA-directed RNA polymerase subunit K; ... 51 4e-05
(P58232) RecName: Full=DNA-directed RNA polymerase subunit K; ... 50 9e-05
BX950229_1327(BX950229|pid:none) Methanococcus maripaludis strai... 48 3e-04
(Q8U0E8) RecName: Full=DNA-directed RNA polymerase subunit K; ... 47 4e-04
AM494962_14(AM494962|pid:none) Leishmania braziliensis chromosom... 47 6e-04
CP000742_629(CP000742|pid:none) Methanococcus vannielii SB, comp... 47 7e-04
CP000745_567(CP000745|pid:none) Methanococcus maripaludis C7, co... 46 0.001
CP000609_265(CP000609|pid:none) Methanococcus maripaludis C5, co... 46 0.001
CP000660_1637(CP000660|pid:none) Pyrobaculum arsenaticum DSM 135... 45 0.002
(P29200) RecName: Full=DNA-directed RNA polymerase subunit K; ... 45 0.002
CP000816_151(CP000816|pid:none) Ignicoccus hospitalis KIN4/I, co... 45 0.002
CP000968_1296(CP000968|pid:none) Candidatus Korarchaeum cryptofi... 45 0.002
CP000743_1077(CP000743|pid:none) Methanococcus aeolicus Nankai-3... 43 0.008
(Q57650) RecName: Full=DNA-directed RNA polymerase subunit K; ... 42 0.018
AP003916_3(AP003916|pid:none) Oryza sativa Japonica Group genomi... 35 0.26
S47328(S47328) DNA-directed RNA polymerase (EC 2.7.7.6) chain K ... 37 0.76
AJ890364_462(AJ890364|pid:none) Emiliania huxleyi virus 86 isola... 36 0.99
CP001287_4093(CP001287|pid:none) Cyanothece sp. PCC 8801, comple... 33 6.4

>(Q54FA8) RecName: Full=DNA-directed RNA polymerases I, II, and III
subunit rpabc2; Short=RNA polymerases I, II,
and III subunit ABC2; AltName: Full=DNA-directed RNA
polymerase II subunit F; AltName: Full=RPB6;
Length = 133

Score = 200 bits (508), Expect = 4e-50
Identities = 99/99 (100%), Positives = 99/99 (100%)
Frame = +3

Query: 99 AYTDIIDPSADANTAEAGRIPNHLRKTTRYMTKYERARLLGSRALQISMNAPIMVELEGE 278
AYTDIIDPSADANTAEAGRIPNHLRKTTRYMTKYERARLLGSRALQISMNAPIMVELEGE
Sbjct: 35 AYTDIIDPSADANTAEAGRIPNHLRKTTRYMTKYERARLLGSRALQISMNAPIMVELEGE 94

Query: 279 TDPLQIAWKELRAKKIPLIIRRFLPNGMYEDWSVDELSI 395
TDPLQIAWKELRAKKIPLIIRRFLPNGMYEDWSVDELSI
Sbjct: 95 TDPLQIAWKELRAKKIPLIIRRFLPNGMYEDWSVDELSI 133

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: 599,588,099
Number of extensions: 8947594
Number of successful extensions: 21078
Number of sequences better than 10.0: 100
Number of HSP's gapped: 21055
Number of HSP's successfully gapped: 103
Length of query: 233
Length of database: 1,040,966,779
Length adjustment: 124
Effective length of query: 109
Effective length of database: 643,635,439
Effective search space: 70156262851
Effective search space used: 70156262851
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: 31 (16.5 bits)

PSORT

psg: 0.75 gvh: 0.33 alm: 0.45 top: 0.53 tms: 0.00 mit: 0.04 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

48.0 %: nuclear
32.0 %: cytoplasmic
8.0 %: vesicles of secretory system
4.0 %: cytoskeletal
4.0 %: vacuolar
4.0 %: mitochondrial

>> prediction for Contig-U06298-1 is nuc

VS (DIR, S) 3
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