Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200129 |
| Name | oriT_ICEVchCHN1909  |
| Organism | Vibrio cholerae strain ICDC-1909 sequence |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | KT151658 (103086..103384 [-], 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_ICEVchCHN1909
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14282 | GenBank | ALP44720 |
| Name | traI_-_ICEVchCHN1909 |
UniProt ID | _ |
| Length | 716 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 716 a.a. Molecular weight: 79739.87 Da Isoelectric Point: 5.3647
>ALP44720.1 conjugative transfer protein relaxase [Vibrio cholerae]
MFKNLFFQAKALPELSSQLDAEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQILGFNQRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLQTLSQWATNNRIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWVRKSNQSTNLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSG
SNERYESLAPEVLIKDDKPIWLPMLHISETDLLFSSNVPSGVTLFSKPEWEATQQTQAEPQSRSSEHPGL
SEASSSIEHSSSAQSPSTNSSEQDDELRHASDVNNPQATENAPGDECEKPNNSYDGAIADNVNQQNEAAL
NLPESLAWLPEASSALVVVGEQVLIRYPDAVRPWCAPRKLLAELSRLDWLELDPANPTRKARTVTTNDGV
QEQGLLLKVSISKRLIALIDISKQDTEPATAIQNEEALQRPSRTKTTNAQAKEPATRAERKQKPIAPNAK
SSTDPKYVQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANAHGIPAGQLLRGISASDEC
QFDEGETVLFTAHAKR
MFKNLFFQAKALPELSSQLDAEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQILGFNQRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLQTLSQWATNNRIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWVRKSNQSTNLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSG
SNERYESLAPEVLIKDDKPIWLPMLHISETDLLFSSNVPSGVTLFSKPEWEATQQTQAEPQSRSSEHPGL
SEASSSIEHSSSAQSPSTNSSEQDDELRHASDVNNPQATENAPGDECEKPNNSYDGAIADNVNQQNEAAL
NLPESLAWLPEASSALVVVGEQVLIRYPDAVRPWCAPRKLLAELSRLDWLELDPANPTRKARTVTTNDGV
QEQGLLLKVSISKRLIALIDISKQDTEPATAIQNEEALQRPSRTKTTNAQAKEPATRAERKQKPIAPNAK
SSTDPKYVQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANAHGIPAGQLLRGISASDEC
QFDEGETVLFTAHAKR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16550 | GenBank | ALP44706 |
| Name | traC_-_ICEVchCHN1909 |
UniProt ID | _ |
| Length | 799 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 799 a.a. Molecular weight: 90157.73 Da Isoelectric Point: 5.9727
>ALP44706.1 plasmid conjugative transfer pilus assembly protein trac [Vibrio cholerae]
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHDDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHDDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16551 | GenBank | ALP44719 |
| Name | traD_-_ICEVchCHN1909 |
UniProt ID | _ |
| Length | 606 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 606 a.a. Molecular weight: 67039.87 Da Isoelectric Point: 6.7825
>ALP44719.1 plasmid conjugative transfer protein [Vibrio cholerae]
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQKG
LKGKPLAFMALSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVNDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVDNRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQKG
LKGKPLAFMALSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVNDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVDNRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 31545..51409
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| Locus_29 | 26784..27386 | + | 603 | ALP44697 | hypothetical protein | - |
| Locus_30 | 27495..28169 | + | 675 | ALP44698 | extracellular deoxyribonuclease dns | - |
| Locus_31 | 28234..28752 | - | 519 | ALP44699 | plasmid-related regulatory protein | - |
| Locus_32 | 28772..31045 | - | 2274 | ALP44700 | plasmid-related membrane protein | - |
| Locus_33 | 31545..35237 | - | 3693 | ALP44701 | plasmid conjugative transfer protein | traN |
| Locus_34 | 35240..36268 | - | 1029 | ALP44702 | plasmid conjugative transfer pilus assembly protein trau | traU |
| Locus_35 | 36252..37376 | - | 1125 | ALP44703 | plasmid conjugative transfer pilus assembly protein traw | traW |
| Locus_36 | 37387..37899 | - | 513 | ALP44704 | conjugative signal peptidase | - |
| Locus_37 | 37883..38230 | - | 348 | ALP44705 | hypothetical protein | - |
| Locus_38 | 38223..40622 | - | 2400 | ALP44706 | plasmid conjugative transfer pilus assembly protein trac | virb4 |
| Locus_39 | 40622..41314 | - | 693 | ALP44707 | thiol:disulfide protein | trbB |
| Locus_40 | 41446..42384 | - | 939 | ALP44708 | ync | - |
| Locus_41 | 42377..43210 | - | 834 | ALP44709 | ynd | - |
| Locus_42 | 43388..43774 | - | 387 | ALP44710 | conjugative transfer protein | - |
| Locus_43 | 43771..44421 | - | 651 | ALP44711 | conjugative transfer protein | traV |
| Locus_44 | 44418..45707 | - | 1290 | ALP44712 | plasmid conjugative transfer pilus assembly protein trab | traB |
| Locus_45 | 45710..46606 | - | 897 | ALP44713 | plasmid conjugative transfer pilus assembly protein trak | traK |
| Locus_46 | 46590..47216 | - | 627 | ALP44714 | plasmid conjugative transfer pilus assembly protein trae | traE |
| Locus_47 | 47213..47494 | - | 282 | ALP44715 | plasmid conjugative transfer pilus assembly protein tral | traL |
| Locus_48 | 47783..48370 | + | 588 | ALP44716 | plasmid relative protein | - |
| Locus_49 | 48397..49032 | - | 636 | ALP44717 | conjugative transfer protein | tfc7 |
| Locus_50 | 49019..49579 | - | 561 | ALP44718 | conjugative transfer protein | - |
| Locus_51 | 49589..51409 | - | 1821 | ALP44719 | plasmid conjugative transfer protein | virb4 |
| Locus_52 | 51458..53608 | - | 2151 | ALP44720 | conjugative transfer protein relaxase | - |
| Locus_53 | 53730..53894 | + | 165 | ALP44721 | hypothetical protein | - |
| Locus_54 | 53857..55992 | - | 2136 | ALP44722 | putative DNA helicase | - |
Host bacterium
| ID | 131 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEVchCHN1909 | GenBank | KT151658 |
| Element size | 108995 bp | Coordinate of oriT [Strand] | 103086..103384 [-] |
| Host bacterium | Vibrio cholerae strain ICDC-1909 sequence | Coordinate of element | 1..108995 |
Cargo genes
| Drug resistance gene | sul2, aph(3'')-Ib, aph(6)-Id, floR |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |