Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200123 |
| Name | oriT_ICEValHN396  |
| Organism | Vibrio alginolyticus strain HN396 sequence |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | KT072770 (3488..3785 [+], 298 nt) |
| oriT length | 298 nt |
| IRs (inverted repeats) | 44..49, 51..56 (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: 298 nt
>oriT_ICEValHN396
GCTCTGTTTGGCGGCGGATAACCTAGCCAAAAAATCGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTCGCCAAACGGTTTGTATCTTCATGGCGATCCGTCTTTTTAGGCGTTTTTAAGTGAAATCGGCCTGTATCCCTTGTCAGGTATGGGATTGCGCGAGTTGATTTATATCGAGACGCCAAACAGTGATTGTTACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTTGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
GCTCTGTTTGGCGGCGGATAACCTAGCCAAAAAATCGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTCGCCAAACGGTTTGTATCTTCATGGCGATCCGTCTTTTTAGGCGTTTTTAAGTGAAATCGGCCTGTATCCCTTGTCAGGTATGGGATTGCGCGAGTTGATTTATATCGAGACGCCAAACAGTGATTGTTACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTTGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14276 | GenBank | ALF35047 |
| Name | rraI_ICEValHN396_019_ICEValHN396 |
UniProt ID | _ |
| Length | 716 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 716 a.a. Molecular weight: 79642.57 Da Isoelectric Point: 4.9991
>ALF35047.1 Conjugative transfer protein, TraI [Vibrio alginolyticus]
MFKNLFFQAKALPELSSQLDADIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
VWLTEPGPEILQVMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWVRKSNQSTNLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDDKPIWLPMLHISEADLLFSSNVPSSVKLFSKSEWEATQQTQAEPQSRSSEHSDL
PEGSSSIEHSNSAESPSSKSSDQDDEIRLASDVNHLQATENAPGDECEKPNNSYDGAIANNVNQHDAEAL
NLSESLAWLPEASSALVVVGEQILIRYPDAIRPWCAPRKLLAELSRLDWLELDPANPTRKARTVTTNDGV
QEQGLLLKVSISKGLTALIDLSKQDAESVTAIQNEEASPRPSLTETTNAQAKEPATRAERKQKPIAPNAQ
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAKR
MFKNLFFQAKALPELSSQLDADIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
VWLTEPGPEILQVMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWVRKSNQSTNLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDDKPIWLPMLHISEADLLFSSNVPSSVKLFSKSEWEATQQTQAEPQSRSSEHSDL
PEGSSSIEHSNSAESPSSKSSDQDDEIRLASDVNHLQATENAPGDECEKPNNSYDGAIANNVNQHDAEAL
NLSESLAWLPEASSALVVVGEQILIRYPDAIRPWCAPRKLLAELSRLDWLELDPANPTRKARTVTTNDGV
QEQGLLLKVSISKGLTALIDLSKQDAESVTAIQNEEASPRPSLTETTNAQAKEPATRAERKQKPIAPNAQ
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAKR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16538 | GenBank | ALF35032 |
| Name | traD_ICEValHN396_020_ICEValHN396 |
UniProt ID | _ |
| Length | 611 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 611 a.a. Molecular weight: 67707.61 Da Isoelectric Point: 6.6443
>ALF35032.1 Conjugative transfer protein, TraD [Vibrio alginolyticus]
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMALSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHASYRKNSQMGSTW
IHGVEPKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACI
AAGSPERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTS
QRPDLKTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAAN
TDLEGLLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGL
DSLTDAMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIAT
QTFADFAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTG
NHGERLMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAV
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMALSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHASYRKNSQMGSTW
IHGVEPKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACI
AAGSPERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTS
QRPDLKTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAAN
TDLEGLLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGL
DSLTDAMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIAT
QTFADFAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTG
NHGERLMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAV
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16539 | GenBank | ALF35030 |
| Name | traC_ICEValHN396_035_ICEValHN396 |
UniProt ID | _ |
| Length | 800 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 800 a.a. Molecular weight: 90251.80 Da Isoelectric Point: 5.7959
>ALF35030.1 Conjugative transfer pilus assembly protein, TraC [Vibrio alginolyticus]
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTEHELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGFDE
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTEHELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGFDE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 29832..49882
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ICEValHN396_018 | 25251..27386 | + | 2136 | ALF35044 | Putative DNA helicase | - |
| ICEValHN396_019 | 27634..29784 | + | 2151 | ALF35047 | Conjugative transfer protein, TraI | - |
| ICEValHN396_020 | 29832..31667 | + | 1836 | ALF35032 | Conjugative transfer protein, TraD | virb4 |
| ICEValHN396_021 | 31677..32237 | + | 561 | ALF35068 | Conjugative transfer protein, S091 | - |
| ICEValHN396_022 | 32224..32859 | + | 636 | ALF35013 | Conjugative transfer protein, TraJ | tfc7 |
| ICEValHN396_023 | 32997..34103 | + | 1107 | ALF35059 | Fic family protein | - |
| ICEValHN396_024 | 34159..34293 | - | 135 | ALF35075 | Hypothetical protein | - |
| ICEValHN396_025 | 34299..34595 | - | 297 | ALF35007 | HigA protein | - |
| ICEValHN396_026 | 34829..35110 | + | 282 | ALF35048 | Conjugative transfer pilus assembly protein, TraL | traL |
| ICEValHN396_027 | 35119..35733 | + | 615 | ALF35025 | Conjugative transfer pilus assembly protein, TraE | traE |
| ICEValHN396_028 | 35717..36613 | + | 897 | ALF35080 | Conjugative transfer pilus assembly protein, TraK | traK |
| ICEValHN396_029 | 36616..37905 | + | 1290 | ALF35076 | Conjugative transfer pilus assembly protein, TraB | traB |
| ICEValHN396_030 | 37902..38552 | + | 651 | ALF35079 | Conjugative transfer protein, TraV | traV |
| ICEValHN396_031 | 38549..38935 | + | 387 | ALF35010 | Conjugative transfer protein, TraA | - |
| ICEValHN396_032 | 38976..39482 | - | 507 | ALF35017 | Acetyltransferase | - |
| ICEValHN396_033 | 39473..39739 | - | 267 | ALF35035 | Hypothetical protein | - |
| ICEValHN396_034 | 40109..40801 | + | 693 | ALF35056 | Thiol:disulfide involved in conjugative transfer, dsbC | trbB |
| ICEValHN396_035 | 40802..43204 | + | 2403 | ALF35030 | Conjugative transfer pilus assembly protein, TraC | virb4 |
| ICEValHN396_036 | 43197..43544 | + | 348 | ALF35028 | Conjugative transfer protein 345 | - |
| ICEValHN396_037 | 43528..44040 | + | 513 | ALF35053 | Conjugative signal peptidase, TrhF | - |
| ICEValHN396_038 | 44051..45175 | + | 1125 | ALF35081 | Conjugative transfer pilus assembly protein, TraW | traW |
| ICEValHN396_039 | 45159..46187 | + | 1029 | ALF35012 | Conjugative transfer protein, TraU | traU |
| ICEValHN396_040 | 46190..49882 | + | 3693 | ALF35065 | Conjugative transfer protein, TraN | traN |
| ICEValHN396_041 | 50579..50818 | + | 240 | ALF35034 | Hypothetical protein | - |
| ICEValHN396_042 | 50961..51554 | + | 594 | ALF35064 | ATP-binding protein | - |
| ICEValHN396_043 | 51759..52163 | + | 405 | ALF35051 | putative transcriptional regulator | - |
| ICEValHN396_044 | 52477..54027 | + | 1551 | ALF35069 | Aerotaxis sensor receptor protein | - |
Host bacterium
| ID | 125 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEValHN396 | GenBank | KT072770 |
| Element size | 86687 bp | Coordinate of oriT [Strand] | 3488..3785 [+] |
| Host bacterium | Vibrio alginolyticus strain HN396 sequence | Coordinate of element | 1..86687 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |