Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200134 |
| Name | oriT_ICEVchCHN57  |
| Organism | Vibrio cholerae strain wujiang-2 sequence |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | KT151664 (90243..90541 [-], 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_ICEVchCHN57
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14287 | GenBank | ALP45291 |
| Name | traI_-_ICEVchCHN57 |
UniProt ID | _ |
| Length | 716 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 716 a.a. Molecular weight: 80010.08 Da Isoelectric Point: 5.6098
>ALP45291.1 conjugative transfer protein relaxase [Vibrio cholerae]
MFKNLFFQAKALPDLSSQLDAEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNLRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWATNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWLRKSNQSTHLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDDKPIWLPMLHISEADLLFSSNVPSSVRLFSKSEWEATQQTQAEPQSRSSEHSDL
PEASSSIEHRKSTESPSTNSSEQDDELRHASDVNHLEENENVPGDGYEKPNNSYDGAISNNVNQHDAEAL
NLPESLVWLPEASSALVMVGEQVLIRYPDAVRHWCAPRKLLAELSRLDWLELDPANPTRKARTVTTKGGV
QEQGLLLKVSISKGLTSLIDLPKQDAESAAAIQNEEASQRPSRTKTTNAQAREPAKRAERKQKPIAPNAN
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVAKEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAER
MFKNLFFQAKALPDLSSQLDAEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNLRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWATNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWLRKSNQSTHLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDDKPIWLPMLHISEADLLFSSNVPSSVRLFSKSEWEATQQTQAEPQSRSSEHSDL
PEASSSIEHRKSTESPSTNSSEQDDELRHASDVNHLEENENVPGDGYEKPNNSYDGAISNNVNQHDAEAL
NLPESLVWLPEASSALVMVGEQVLIRYPDAVRHWCAPRKLLAELSRLDWLELDPANPTRKARTVTTKGGV
QEQGLLLKVSISKGLTSLIDLPKQDAESAAAIQNEEASQRPSRTKTTNAQAREPAKRAERKQKPIAPNAN
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVAKEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAER
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16560 | GenBank | ALP45277 |
| Name | traC_-_ICEVchCHN57 |
UniProt ID | _ |
| Length | 799 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 799 a.a. Molecular weight: 90170.73 Da Isoelectric Point: 5.9735
>ALP45277.1 plasmid conjugative transfer pilus assembly protein trac [Vibrio cholerae]
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRASALRASFSQALATVGFRVNEMTDRNWLAALSAQLNWGKDASWRNPSPVRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRASALRASFSQALATVGFRVNEMTDRNWLAALSAQLNWGKDASWRNPSPVRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16561 | GenBank | ALP45290 |
| Name | traD_-_ICEVchCHN57 |
UniProt ID | _ |
| Length | 606 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 606 a.a. Molecular weight: 67115.98 Da Isoelectric Point: 6.5130
>ALP45290.1 plasmid conjugative transfer protein [Vibrio cholerae]
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMELSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKKTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMELSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKKTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 33936..53801
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| Locus_36 | 29896..31404 | + | 1509 | ALP45269 | transposase | - |
| Locus_37 | 31394..32149 | + | 756 | ALP45270 | ISPsy4 transposition helper protein | - |
| Locus_38 | 32229..33845 | + | 1617 | ALP45271 | SMC-like protein | - |
| Locus_39 | 33936..37628 | - | 3693 | ALP45272 | plasmid conjugative transfer protein | traN |
| Locus_40 | 37631..38659 | - | 1029 | ALP45273 | plasmid conjugative transfer pilus assembly protein trau | traU |
| Locus_41 | 38643..39767 | - | 1125 | ALP45274 | plasmid conjugative transfer pilus assembly protein traw | traW |
| Locus_42 | 39778..40290 | - | 513 | ALP45275 | conjugative signal peptidase | - |
| Locus_43 | 40274..40621 | - | 348 | ALP45276 | conjugative transfer protein | - |
| Locus_44 | 40614..43013 | - | 2400 | ALP45277 | plasmid conjugative transfer pilus assembly protein trac | virb4 |
| Locus_45 | 43013..43705 | - | 693 | ALP45278 | thiol:disulfide protein | trbB |
| Locus_46 | 43837..44775 | - | 939 | ALP45279 | ync | - |
| Locus_47 | 44768..45601 | - | 834 | ALP45280 | ynd | - |
| Locus_48 | 45780..46166 | - | 387 | ALP45281 | conjugative transfer protein | - |
| Locus_49 | 46163..46813 | - | 651 | ALP45282 | conjugative transfer protein | traV |
| Locus_50 | 46810..48099 | - | 1290 | ALP45283 | plasmid conjugative transfer pilus assembly protein trab | traB |
| Locus_51 | 48102..48998 | - | 897 | ALP45284 | plasmid conjugative transfer pilus assembly protein trak | traK |
| Locus_52 | 48982..49608 | - | 627 | ALP45285 | plasmid conjugative transfer pilus assembly protein trae | traE |
| Locus_53 | 49605..49886 | - | 282 | ALP45286 | plasmid conjugative transfer pilus assembly protein tral | traL |
| Locus_54 | 50175..50762 | + | 588 | ALP45287 | hypothetical protein | - |
| Locus_55 | 50789..51424 | - | 636 | ALP45288 | conjugative transfer protein | tfc7 |
| Locus_56 | 51411..51971 | - | 561 | ALP45289 | conjugative transfer protein | - |
| Locus_57 | 51981..53801 | - | 1821 | ALP45290 | plasmid conjugative transfer protein | virb4 |
| Locus_58 | 53850..56000 | - | 2151 | ALP45291 | conjugative transfer protein relaxase | - |
| Locus_59 | 56122..56937 | - | 816 | ALP45292 | hypothetical protein | - |
| Locus_60 | 56972..57742 | - | 771 | ALP45293 | hypothetical protein | - |
Host bacterium
| ID | 136 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEVchCHN57 | GenBank | KT151664 |
| Element size | 96186 bp | Coordinate of oriT [Strand] | 90243..90541 [-] |
| Host bacterium | Vibrio cholerae strain wujiang-2 sequence | Coordinate of element | 1..96186 |
Cargo genes
| Drug resistance gene | dfrA1, sul2, aph(3'')-Ib, aph(6)-Id, tet(59) |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |