Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200403 |
| Name | oriT_ICEVchRua1  |
| Organism | Vibrio cholerae O1 biovar El Tor str. Ogawa RND6878 ICE element |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | KY382507 (91925..92223 [-], 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_ICEVchRua1
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14431 | GenBank | AQY15929 |
| Name | TraI_2_-_ICEVchRua1 |
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
>AQY15929.1 conjugative transfer protein TraI [Vibrio cholerae O1 biovar El Tor str. Ogawa RND6878]
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 | 16960 | GenBank | AQY15915 |
| Name | t4cp2_-_ICEVchRua1 |
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
>AQY15915.1 IncF plasmid conjugative transfer pilus assembly protein TraC [Vibrio cholerae O1 biovar El Tor str. Ogawa RND6878]
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 | 16960 | GenBank | AQY15915 |
| Name | t4cp2_-_ICEVchRua1 |
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
>AQY15915.1 IncF plasmid conjugative transfer pilus assembly protein TraC [Vibrio cholerae O1 biovar El Tor str. Ogawa RND6878]
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.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 33957..53822
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| Locus_35 | 29917..31425 | + | 1509 | AQY15966 | hypothetical protein | - |
| Locus_36 | 31415..32170 | + | 756 | AQY15908 | Mobile element protein | - |
| Locus_37 | 32382..33866 | + | 1485 | AQY15909 | ATPase | - |
| Locus_38 | 33957..37649 | - | 3693 | AQY15910 | IncF plasmid conjugative transfer protein TraN | traN |
| Locus_39 | 37652..38680 | - | 1029 | AQY15911 | IncF plasmid conjugative transfer pilus assembly protein TraU | traU |
| Locus_40 | 38664..39788 | - | 1125 | AQY15912 | IncF plasmid conjugative transfer pilus assembly protein TraW | traW |
| Locus_41 | 39799..40311 | - | 513 | AQY15913 | conjugative signal peptidase TrhF | - |
| Locus_42 | 40295..40642 | - | 348 | AQY15914 | conjugative transfer protein 345 | - |
| Locus_43 | 40635..43034 | - | 2400 | AQY15915 | IncF plasmid conjugative transfer pilus assembly protein TraC | virb4 |
| Locus_44 | 43034..43726 | - | 693 | AQY15916 | Thiol disulfide | trbB |
| Locus_45 | 43858..44796 | - | 939 | AQY15917 | Ync | - |
| Locus_46 | 44789..45622 | - | 834 | AQY15918 | Ynd | - |
| Locus_47 | 45801..46187 | - | 387 | AQY15919 | conjugative transfer protein TraA | - |
| Locus_48 | 46184..46834 | - | 651 | AQY15920 | conjugative transfer protein TraV | traV |
| Locus_49 | 46831..48120 | - | 1290 | AQY15921 | IncF plasmid conjugative transfer pilus assembly protein TraB | traB |
| Locus_50 | 48123..49019 | - | 897 | AQY15922 | IncF plasmid conjugative transfer pilus assembly protein TraK | traK |
| Locus_51 | 49003..49629 | - | 627 | AQY15923 | IncF plasmid conjugative transfer pilus assembly protein TraE | traE |
| Locus_52 | 49626..49907 | - | 282 | AQY15924 | IncF plasmid conjugative transfer pilus assembly protein TraL | traL |
| Locus_53 | 50196..50783 | + | 588 | AQY15925 | hypothetical protein | - |
| Locus_54 | 50810..51445 | - | 636 | AQY15926 | conjugative transfer protein s043 | tfc7 |
| Locus_55 | 51432..51992 | - | 561 | AQY15927 | conjugative transfer protein 234 | - |
| Locus_56 | 52002..53822 | - | 1821 | AQY15928 | IncF plasmid conjugative transfer protein TraD | virb4 |
| Locus_57 | 53871..56021 | - | 2151 | AQY15929 | conjugative transfer protein TraI | - |
| Locus_58 | 56143..56958 | - | 816 | AQY15930 | abortive phage resistance protein | - |
| Locus_59 | 56993..57763 | - | 771 | AQY15931 | hypothetical protein | - |
Host bacterium
| ID | 358 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEVchRua1 | GenBank | KY382507 |
| Element size | 97915 bp | Coordinate of oriT [Strand] | 91925..92223 [-] |
| Host bacterium | Vibrio cholerae O1 biovar El Tor str. Ogawa RND6878 ICE element | Coordinate of element | 1..97915 |
Cargo genes
| Drug resistance gene | dfrA1, sul2, aph(3'')-Ib, aph(6)-Id, floR |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |