Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200139 |
| Name | oriT_ICEVchNig1  |
| Organism | Vibrio cholerae VC833 ICE element |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | KC886258 (5166..5464 [+], 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_ICEVchNig1
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14292 | GenBank | AHM25174 |
| Name | TraI_2_K531_00180_ICEVchNig1 |
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
>AHM25174.1 conjugal transfer pilus assembly protein TraI [Vibrio cholerae VC833]
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 | 16570 | GenBank | AHM25175 |
| Name | t4cp2_K531_00185_ICEVchNig1 |
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
>AHM25175.1 conjugal transfer pilus assembly protein TraD [Vibrio cholerae VC833]
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.
| ID | 16571 | GenBank | AHM25189 |
| Name | t4cp2_K531_00255_ICEVchNig1 |
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
>AHM25189.1 conjugal transfer ATP-binding protein TraC [Vibrio cholerae VC833]
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: 44094..63959
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| K531_00170 | 40153..40923 | + | 771 | AHM25172 | hypothetical protein | - |
| K531_00175 | 40958..41773 | + | 816 | AHM25173 | hypothetical protein | - |
| K531_00180 | 41895..44045 | + | 2151 | AHM25174 | conjugal transfer pilus assembly protein TraI | - |
| K531_00185 | 44094..45914 | + | 1821 | AHM25175 | conjugal transfer pilus assembly protein TraD | virb4 |
| K531_00190 | 45924..46484 | + | 561 | AHM25176 | plasmid-related protein | - |
| K531_00195 | 46471..47106 | + | 636 | AHM25177 | plasmid-related protein | tfc7 |
| K531_00200 | 47133..47720 | - | 588 | AHM25178 | hypothetical protein | - |
| K531_00205 | 47734..47973 | - | 240 | AHM25179 | plasmid-related protein | - |
| K531_00210 | 48009..48290 | + | 282 | AHM25180 | IncF plasmid conjugative transfer pilus assembly protein TraL | traL |
| K531_00215 | 48287..48913 | + | 627 | AHM25181 | IncF plasmid conjugative transfer pilus assembly protein TraE | traE |
| K531_00220 | 48897..49793 | + | 897 | AHM25182 | conjugal transfer pilus assembly protein TraK | traK |
| K531_00225 | 49796..51085 | + | 1290 | AHM25183 | conjugal transfer pilus assembly protein TraB | traB |
| K531_00230 | 51160..51732 | + | 573 | AHM25184 | Conjugative transfer protein TraV | traV |
| K531_00235 | 51729..52115 | + | 387 | AHM25185 | conjugal transfer pilus assembly protein TraA | - |
| K531_00240 | 52294..53127 | + | 834 | AHM25186 | Ynd | - |
| K531_00245 | 53120..54058 | + | 939 | AHM25187 | plasmid-related protein | - |
| K531_00250 | 54190..54882 | + | 693 | AHM25188 | thiol:disulfide interchange protein DsbC | trbB |
| K531_00255 | 54882..57281 | + | 2400 | AHM25189 | conjugal transfer ATP-binding protein TraC | virb4 |
| K531_00260 | 57274..57621 | + | 348 | AHM25190 | hypothetical protein | - |
| K531_00265 | 57605..58117 | + | 513 | AHM25191 | conjugal transfer pilin signal peptidase TrbI | - |
| K531_00270 | 58128..59252 | + | 1125 | AHM25192 | conjugal transfer pilus assembly protein TraW | traW |
| K531_00275 | 59236..60264 | + | 1029 | AHM25193 | conjugal transfer pilus assembly protein TraU | traU |
| K531_00280 | 60267..63959 | + | 3693 | AHM25194 | conjugal transfer mating pair stabilization protein TraN | traN |
| K531_00285 | 64050..65666 | - | 1617 | AHM25195 | SMC domain protein | - |
| K531_00290 | 65746..66501 | - | 756 | AHM25196 | IstB ATP binding domain-containing protein | - |
| K531_00295 | 66491..67999 | - | 1509 | AHM25197 | integrase catalytic subunit | - |
Host bacterium
| ID | 141 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEVchNig1 | GenBank | KC886258 |
| Element size | 97915 bp | Coordinate of oriT [Strand] | 5166..5464 [+] |
| Host bacterium | Vibrio cholerae VC833 ICE element | Coordinate of element | 528..97570 |
Cargo genes
| Drug resistance gene | floR, aph(6)-Id, aph(3'')-Ib, sul2, dfrA1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |