Contig-U06298-1 |
Contig ID |
Contig-U06298-1 |
Contig update |
2001. 8.30 |
Contig sequence |
|
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) |
|
Translated Amino Acid sequence |
|
Translated Amino Acid sequence (All Frames) |
|
own update |
2004. 6.10 |
Homology vs CSM-cDNA |
|
dna update |
2008.11. 8 |
Homology vs DNA |
|
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 |
|
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 |