Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200120 |
| Name | oriT_ICEValA056-1  |
| Organism | Vibrio alginolyticus strain A056 sequence |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | KR231688 (4548..4846 [+], 299 nt) |
| oriT length | 299 nt |
| IRs (inverted repeats) | 234..242, 254..262 (AAAGCCAAA..TTTGGCTTT) 45..50, 52..57 (CAAACG..CGTTTG) 7..12, 26..31 (TTTGGC..GCCAAA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 299 nt
>oriT_ICEValA056-1
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14273 | GenBank | ALJ83441 |
| Name | traI_ICEValA056_029_ICEValA056-1 |
UniProt ID | _ |
| Length | 716 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 716 a.a. Molecular weight: 79741.77 Da Isoelectric Point: 5.0396
>ALJ83441.1 conjugative transfer protein TraI [Vibrio alginolyticus]
MFKNLFFQTKALPELSSQLDAEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQASEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKSQRVSVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWLRKSNQSTHLYLVWKSAAKDIIELLVKDKIPGIPRDPDTLADILIERGLAIKSA
SNERYESLAPEVLIKDGKPIWLPMLHISEADLLFSSNVPIGVTLFSKPEWEATQQTQAEPQSRSSEQPGL
SEASSSIELSNSAESPSTNSSEQDDERRLVSDVNHLQATENVPGDECEKPNNSYDGAISNNVNQHDAEAL
NLPESLAWLPEASSALVMVDEQILIRYPDAVRPWCAPRKLLAELSRLDWLELDPANPTRKARTVTTNDGV
QEQGLLLKVSISKGLTALIDLSNQDAESVTAIQNEEASQRPSRTETANAQAKEPATRAERKQKPIAPNAN
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANAHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAKR
MFKNLFFQTKALPELSSQLDAEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQASEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKSQRVSVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWLRKSNQSTHLYLVWKSAAKDIIELLVKDKIPGIPRDPDTLADILIERGLAIKSA
SNERYESLAPEVLIKDGKPIWLPMLHISEADLLFSSNVPIGVTLFSKPEWEATQQTQAEPQSRSSEQPGL
SEASSSIELSNSAESPSTNSSEQDDERRLVSDVNHLQATENVPGDECEKPNNSYDGAISNNVNQHDAEAL
NLPESLAWLPEASSALVMVDEQILIRYPDAVRPWCAPRKLLAELSRLDWLELDPANPTRKARTVTTNDGV
QEQGLLLKVSISKGLTALIDLSNQDAESVTAIQNEEASQRPSRTETANAQAKEPATRAERKQKPIAPNAN
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANAHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAKR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16531 | GenBank | ALJ83444 |
| Name | traD_ICEValA056_030_ICEValA056-1 |
UniProt ID | _ |
| Length | 606 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 606 a.a. Molecular weight: 67057.95 Da Isoelectric Point: 6.6444
>ALJ83444.1 IncF plasmid conjugative transfer protein TraD [Vibrio alginolyticus]
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMALSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKKTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMALSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKKTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16532 | GenBank | ALJ83434 |
| Name | traC_ICEValA056_045_ICEValA056-1 |
UniProt ID | _ |
| Length | 799 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 799 a.a. Molecular weight: 90182.72 Da Isoelectric Point: 5.9735
>ALJ83434.1 IncF plasmid conjugative transfer pilus assembly protein TraC [Vibrio alginolyticus]
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAESI
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMNLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAESI
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMNLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 34729..56035
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ICEValA056_028 | 31192..32373 | + | 1182 | ALJ83445 | putative inner membrane protein | - |
| ICEValA056_029 | 32530..34680 | + | 2151 | ALJ83441 | conjugative transfer protein TraI | - |
| ICEValA056_030 | 34729..36549 | + | 1821 | ALJ83444 | IncF plasmid conjugative transfer protein TraD | virb4 |
| ICEValA056_031 | 36559..37119 | + | 561 | ALJ83369 | conjugative transfer protein 234 | - |
| ICEValA056_032 | 37106..37741 | + | 636 | ALJ83377 | conjugative transfer protein TraJ | tfc7 |
| ICEValA056_033 | 37813..38451 | + | 639 | ALJ83395 | hypothetical protein | - |
| ICEValA056_034 | 38444..39550 | + | 1107 | ALJ83419 | transcriptional regulator | - |
| ICEValA056_035 | 39626..40831 | + | 1206 | ALJ83390 | mobile element protein | - |
| ICEValA056_036 | 40986..41267 | + | 282 | ALJ83388 | IncF plasmid conjugative transfer pilus assembly protein TraL | traL |
| ICEValA056_037 | 41264..41890 | + | 627 | ALJ83415 | IncF plasmid conjugative transfer pilus assembly protein TraE | traE |
| ICEValA056_038 | 41874..42770 | + | 897 | ALJ83446 | IncF plasmid conjugative transfer pilus assembly protein TraK | traK |
| ICEValA056_039 | 42773..44062 | + | 1290 | ALJ83371 | IncF plasmid conjugative transfer pilus assembly protein TraB | traB |
| ICEValA056_040 | 44059..44709 | + | 651 | ALJ83430 | conjugative transfer protein TraV | traV |
| ICEValA056_041 | 44706..45092 | + | 387 | ALJ83394 | conjugative transfer protein TraA | - |
| ICEValA056_042 | 45133..45639 | - | 507 | ALJ83429 | acetyltransferase | - |
| ICEValA056_043 | 45630..45896 | - | 267 | ALJ83413 | hypothetical protein | - |
| ICEValA056_044 | 46265..46957 | + | 693 | ALJ83426 | DsbC | trbB |
| ICEValA056_045 | 46958..49357 | + | 2400 | ALJ83434 | IncF plasmid conjugative transfer pilus assembly protein TraC | virb4 |
| ICEValA056_046 | 49350..49697 | + | 348 | ALJ83382 | conjugative transfer protein 345 | - |
| ICEValA056_047 | 49681..50193 | + | 513 | ALJ83398 | conjugative signal peptidase TrhF | - |
| ICEValA056_048 | 50204..51328 | + | 1125 | ALJ83403 | IncF plasmid conjugative transfer pilus assembly protein TraW | traW |
| ICEValA056_049 | 51360..52340 | + | 981 | ALJ83408 | IncF plasmid conjugative transfer pilus assembly protein TraU | traU |
| ICEValA056_050 | 52343..56035 | + | 3693 | ALJ83381 | IncF plasmid conjugative transfer protein TraN | traN |
| ICEValA056_051 | 56267..56599 | + | 333 | ALJ83432 | hypothetical protein | - |
| ICEValA056_052 | 56630..57292 | + | 663 | ALJ83375 | hypothetical protein | - |
| ICEValA056_053 | 57383..57985 | - | 603 | ALJ83402 | hypothetical protein | - |
| ICEValA056_054 | 58353..58679 | + | 327 | ALJ83412 | hypothetical protein | - |
| ICEValA056_055 | 58695..59114 | + | 420 | ALJ83397 | single-stranded DNA-binding protein | - |
| ICEValA056_056 | 59194..60012 | + | 819 | ALJ83439 | recombination protein Bet | - |
| ICEValA056_057 | 60093..60236 | + | 144 | ALJ83420 | hypothetical protein | - |
Host bacterium
| ID | 122 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEValA056-1 | GenBank | KR231688 |
| Element size | 89004 bp | Coordinate of oriT [Strand] | 4548..4846 [+] |
| Host bacterium | Vibrio alginolyticus strain A056 sequence | Coordinate of element | 1..89004 |
Cargo genes
| Drug resistance gene | aph(6)-Id, aph(3'')-Ib, sul2 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |