Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200137 |
| Name | oriT_ICEVchHai2  |
| Organism | Vibrio cholerae HC-1A2 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | AJRO01000008 (5445..5743 [+], 299 nt) |
| oriT length | 299 nt |
| IRs (inverted repeats) | 45..50, 52..57 (CAAACG..CGTTTG) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 299 nt
>oriT_ICEVchHai2
GCTCTGTTTGGCGGCGGATGACCTAGTCAAAAAAATCGAAACGCCAAACGTCGTTTGCAGTCTGGCCTGAACTCGCCAAACGGTTTGTATCTTCATGACGATACGTCTTTTTAGGCGTTTTTAAGTGAAATCGGGCTGTATCCCTTGTCAGGTATGGGATTGCGCGAGTTGATTTATATCGAGACGCCAAACAGTGATTGTTAGGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTTGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
GCTCTGTTTGGCGGCGGATGACCTAGTCAAAAAAATCGAAACGCCAAACGTCGTTTGCAGTCTGGCCTGAACTCGCCAAACGGTTTGTATCTTCATGACGATACGTCTTTTTAGGCGTTTTTAAGTGAAATCGGGCTGTATCCCTTGTCAGGTATGGGATTGCGCGAGTTGATTTATATCGAGACGCCAAACAGTGATTGTTAGGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTTGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14290 | GenBank | EKK94849 |
| Name | TraI_2_VCHC1A2_1597_ICEVchHai2 |
UniProt ID | _ |
| Length | 716 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 716 a.a. Molecular weight: 79995.25 Da Isoelectric Point: 5.5219
>EKK94849.1 helicase family protein [Vibrio cholerae HC-1A2]
MFKNLFFQTKALPELSSQLDAEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWVQKSNQSTHLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDDKPIWLAMLHISEADLLFSSNVPSSVRLFSKSQWEATQQTKVEPQSRSSEYPDL
PEASSSIEHSNSAESPSTKPSDQDDELRLARNVYHLHANENVPGDGCEKPNDSKDAAIANNVNQHDAEAL
NLPESLAWLPEASSALVMVDEQILIRYPDAVRHWCAPRKLLAELSRLDWLELDPANPTRKARTVTTKDGV
QEQGLLLKVSISKGLTALIDLPKQDAEPAAAIQNEEALQRPSRTETTNAQAKEPATRTERKQKPIAANAN
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAKR
MFKNLFFQTKALPELSSQLDAEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWVQKSNQSTHLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDDKPIWLAMLHISEADLLFSSNVPSSVRLFSKSQWEATQQTKVEPQSRSSEYPDL
PEASSSIEHSNSAESPSTKPSDQDDELRLARNVYHLHANENVPGDGCEKPNDSKDAAIANNVNQHDAEAL
NLPESLAWLPEASSALVMVDEQILIRYPDAVRHWCAPRKLLAELSRLDWLELDPANPTRKARTVTTKDGV
QEQGLLLKVSISKGLTALIDLPKQDAEPAAAIQNEEALQRPSRTETTNAQAKEPATRTERKQKPIAANAN
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAKR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16566 | GenBank | EKK94850 |
| Name | traD_VCHC1A2_1598_ICEVchHai2 |
UniProt ID | _ |
| Length | 606 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 606 a.a. Molecular weight: 67169.03 Da Isoelectric Point: 6.6448
>EKK94850.1 conjugative coupling factor TraD, SXT/TOL subfamily protein [Vibrio cholerae HC-1A2]
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQKG
LKGKPLAFMELSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNRGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEVAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQKG
LKGKPLAFMELSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNRGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEVAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16567 | GenBank | EKK94863 |
| Name | traC_VCHC1A2_1611_ICEVchHai2 |
UniProt ID | _ |
| Length | 799 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 799 a.a. Molecular weight: 90181.69 Da Isoelectric Point: 5.9727
>EKK94863.1 type-IV secretion system protein TraC [Vibrio cholerae HC-1A2]
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLENP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERVWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAESI
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMNLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHDDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLENP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERVWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAESI
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMNLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHDDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 74232..93728
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| VCHC1A2_1595 | 70457..71065 | + | 609 | EKK94847 | hypothetical protein | - |
| VCHC1A2_1596 | 71099..71914 | + | 816 | EKK94848 | hypothetical protein | - |
| VCHC1A2_1597 | 72033..74183 | + | 2151 | EKK94849 | helicase family protein | - |
| VCHC1A2_1598 | 74232..76052 | + | 1821 | EKK94850 | conjugative coupling factor TraD, SXT/TOL subfamily protein | virb4 |
| VCHC1A2_1599 | 76086..76622 | + | 537 | EKK94851 | hypothetical protein | - |
| VCHC1A2_1600 | 76609..77244 | + | 636 | EKK94852 | hypothetical protein | tfc7 |
| VCHC1A2_1601 | 77383..78489 | + | 1107 | EKK94853 | fic/DOC family protein | - |
| VCHC1A2_1602 | 78679..78960 | + | 282 | EKK94854 | type IV conjugative transfer system protein TraL | traL |
| VCHC1A2_1603 | 78969..79583 | + | 615 | EKK94855 | traE family protein | traE |
| VCHC1A2_1604 | 79591..80463 | + | 873 | EKK94856 | traK family protein | traK |
| VCHC1A2_1605 | 80466..81755 | + | 1290 | EKK94857 | bacterial conjugation TrbI-like family protein | traB |
| VCHC1A2_1606 | 81752..82402 | + | 651 | EKK94858 | type IV conjugative transfer system protein TraV | traV |
| VCHC1A2_1607 | 82399..82785 | + | 387 | EKK94859 | hypothetical protein | - |
| VCHC1A2_1608 | 82826..83332 | - | 507 | EKK94860 | acetyltransferase family protein | - |
| VCHC1A2_1609 | 83323..83562 | - | 240 | EKK94861 | hypothetical protein | - |
| VCHC1A2_1610 | 83958..84650 | + | 693 | EKK94862 | disulfide bond isomerase family protein | trbB |
| VCHC1A2_1611 | 84651..87050 | + | 2400 | EKK94863 | type-IV secretion system protein TraC | virb4 |
| VCHC1A2_1612 | 87070..87390 | + | 321 | EKK94864 | hypothetical protein | - |
| VCHC1A2_1613 | 87443..87886 | + | 444 | EKK94865 | peptidase S26 family protein | - |
| VCHC1A2_1614 | 88008..89021 | + | 1014 | EKK94866 | type-F conjugative transfer system pilin assembly family protein | traW |
| VCHC1A2_1615 | 89281..90033 | + | 753 | EKK94867 | traU family protein | traU |
| VCHC1A2_1616 | 90036..93728 | + | 3693 | EKK94868 | traN family protein | traN |
| VCHC1A2_1617 | 93843..94169 | - | 327 | EKK94869 | putative transposase | - |
| VCHC1A2_1618 | 94288..94428 | - | 141 | EKK94870 | hypothetical protein | - |
| VCHC1A2_1619 | 94499..95449 | - | 951 | EKK94871 | trp repressor family protein | - |
| VCHC1A2_1620 | 95540..96298 | - | 759 | EKK94872 | transposase DDE domain protein | - |
| VCHC1A2_1621 | 96320..96445 | + | 126 | EKK94873 | hypothetical protein | - |
| VCHC1A2_1622 | 96767..97696 | + | 930 | EKK94874 | DNA recombination-mediator A family protein | - |
Host bacterium
| ID | 139 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEVchHai2 | GenBank | AJRO01000008 |
| Element size | 188304 bp | Coordinate of oriT [Strand] | 5445..5743 [+] |
| Host bacterium | Vibrio cholerae HC-1A2 | Coordinate of element | 45958..128752 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |