Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200417 |
| Name | oriT_Tn6864  |
| Organism | Providencia rettgeri strain RF14-2 sequence |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | MT219827 (3554..3852 [+], 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_Tn6864
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14445 | GenBank | QIZ19869 |
| Name | TraI_2_ICEPreChnRF14-2_00036_Tn6864 |
UniProt ID | _ |
| Length | 716 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 716 a.a. Molecular weight: 79789.91 Da Isoelectric Point: 5.2251
>QIZ19869.1 hypothetical protein ICEPreChnRF14-2_00036 [Providencia rettgeri]
MFKNLFFQTKALPELSSQLDTEIPRYPPFLKGLPAASPEDLQSTQDELITKLRQVLGFNLRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNTIGVPVERYLLDAMRRL
LASSQWLVNQRDARVWIRKSNQSTNLYLVWKSAAKEIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDGKPIWLPMLHISEADLLFSSNVPSGVRLFSKSEWEATQQTQAEPQSRSSEQPGL
SEASSSIELNNSAESPSTKSSEQDDERRLASDVNHLQATENAPGDECEKPNNSYDGAISNNVNQHDAEAL
NLPESLAWLPEASSALVMVDEQILVRYPDAVRHWCAPRKLLAELSRLDWLEIDPANPTRKARTVTTKGGV
QEQGLLLKVSISKGLTALIDLPKQDAESAAAIQNEEASPRPSRTETTNARAKEPSKRAECKQKPIAPNAN
SSIDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAER
MFKNLFFQTKALPELSSQLDTEIPRYPPFLKGLPAASPEDLQSTQDELITKLRQVLGFNLRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNTIGVPVERYLLDAMRRL
LASSQWLVNQRDARVWIRKSNQSTNLYLVWKSAAKEIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDGKPIWLPMLHISEADLLFSSNVPSGVRLFSKSEWEATQQTQAEPQSRSSEQPGL
SEASSSIELNNSAESPSTKSSEQDDERRLASDVNHLQATENAPGDECEKPNNSYDGAISNNVNQHDAEAL
NLPESLAWLPEASSALVMVDEQILVRYPDAVRHWCAPRKLLAELSRLDWLEIDPANPTRKARTVTTKGGV
QEQGLLLKVSISKGLTALIDLPKQDAESAAAIQNEEASPRPSRTETTNARAKEPSKRAECKQKPIAPNAN
SSIDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAER
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16983 | GenBank | QIZ19870 |
| Name | t4cp2_ICEPreChnRF14-2_00037_Tn6864 |
UniProt ID | _ |
| Length | 606 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 606 a.a. Molecular weight: 67131.94 Da Isoelectric Point: 6.3833
>QIZ19870.1 hypothetical protein ICEPreChnRF14-2_00037 [Providencia rettgeri]
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMELSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FSARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMELSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FSARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16984 | GenBank | QIZ19884 |
| Name | traC_ICEPreChnRF14-2_00051_Tn6864 |
UniProt ID | _ |
| Length | 799 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 799 a.a. Molecular weight: 90174.75 Da Isoelectric Point: 5.8177
>QIZ19884.1 Protein TraC [Providencia rettgeri]
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQLMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRTSALRASFSQALTTVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHDDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQLMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRTSALRASFSQALTTVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
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: 41761..68004
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ICEPreChnRF14-2_00033 | 37740..38594 | + | 855 | QIZ19866 | Mrr restriction system protein | - |
| ICEPreChnRF14-2_00034 | 38688..38969 | + | 282 | QIZ19867 | hypothetical protein | - |
| ICEPreChnRF14-2_00035 | 38969..39442 | + | 474 | QIZ19868 | hypothetical protein | - |
| ICEPreChnRF14-2_00036 | 39562..41712 | + | 2151 | QIZ19869 | hypothetical protein | - |
| ICEPreChnRF14-2_00037 | 41761..43581 | + | 1821 | QIZ19870 | hypothetical protein | virb4 |
| ICEPreChnRF14-2_00038 | 43591..44151 | + | 561 | QIZ19871 | hypothetical protein | - |
| ICEPreChnRF14-2_00039 | 44138..44773 | + | 636 | QIZ19872 | hypothetical protein | tfc7 |
| ICEPreChnRF14-2_00040 | 44800..45387 | - | 588 | QIZ19873 | hypothetical protein | - |
| ICEPreChnRF14-2_00041 | 45401..45640 | - | 240 | QIZ19874 | hypothetical protein | - |
| ICEPreChnRF14-2_00042 | 45676..45957 | + | 282 | QIZ19875 | hypothetical protein | traL |
| ICEPreChnRF14-2_00043 | 45954..46580 | + | 627 | QIZ19876 | hypothetical protein | traE |
| ICEPreChnRF14-2_00044 | 46561..47460 | + | 900 | QIZ19877 | hypothetical protein | traK |
| ICEPreChnRF14-2_00045 | 47463..48752 | + | 1290 | QIZ19878 | hypothetical protein | traB |
| ICEPreChnRF14-2_00046 | 48827..49399 | + | 573 | QIZ19879 | hypothetical protein | traV |
| ICEPreChnRF14-2_00047 | 49396..49782 | + | 387 | QIZ19880 | hypothetical protein | - |
| ICEPreChnRF14-2_00048 | 49961..50794 | + | 834 | QIZ19881 | hypothetical protein | - |
| ICEPreChnRF14-2_00049 | 50787..51725 | + | 939 | QIZ19882 | hypothetical protein | - |
| ICEPreChnRF14-2_00050 | 51857..52549 | + | 693 | QIZ19883 | Thiol:disulfide interchange protein DsbC | trbB |
| ICEPreChnRF14-2_00051 | 52549..54948 | + | 2400 | QIZ19884 | Protein TraC | virb4 |
| ICEPreChnRF14-2_00052 | 54941..55288 | + | 348 | QIZ19885 | hypothetical protein | - |
| ICEPreChnRF14-2_00053 | 55272..55784 | + | 513 | QIZ19886 | hypothetical protein | - |
| ICEPreChnRF14-2_00054 | 55795..56919 | + | 1125 | QIZ19887 | hypothetical protein | traW |
| ICEPreChnRF14-2_00055 | 56903..57931 | + | 1029 | QIZ19888 | hypothetical protein | traU |
| ICEPreChnRF14-2_00056 | 57934..61626 | + | 3693 | QIZ19889 | hypothetical protein | traN |
| ICEPreChnRF14-2_00057 | 62085..63503 | + | 1419 | QIZ19890 | hypothetical protein | - |
| ICEPreChnRF14-2_00058 | 63500..64705 | + | 1206 | QIZ19891 | hypothetical protein | - |
| ICEPreChnRF14-2_00059 | 64754..65131 | + | 378 | QIZ19892 | hypothetical protein | - |
| ICEPreChnRF14-2_00060 | 65128..65475 | + | 348 | QIZ19893 | hypothetical protein | - |
| ICEPreChnRF14-2_00061 | 65534..67054 | + | 1521 | QIZ19894 | IS66 family transposase ISSpu24 | - |
| ICEPreChnRF14-2_00062 | 67258..68004 | + | 747 | QIZ19895 | hypothetical protein | traU |
| ICEPreChnRF14-2_00063 | 68413..69126 | - | 714 | QIZ19896 | Endonuclease-1 | - |
| ICEPreChnRF14-2_00064 | 69129..69362 | - | 234 | QIZ19897 | ISL3 family transposase ISPpu12 | - |
| ICEPreChnRF14-2_00065 | 69301..70125 | - | 825 | QIZ19898 | hypothetical protein | - |
| ICEPreChnRF14-2_00066 | 70438..70950 | - | 513 | QIZ19899 | Lipoprotein signal peptidase | - |
| ICEPreChnRF14-2_00067 | 70954..71850 | - | 897 | QIZ19900 | Zinc transporter ZitB | - |
| ICEPreChnRF14-2_00068 | 71946..72353 | + | 408 | QIZ19901 | HTH-type transcriptional regulator CueR | - |
| ICEPreChnRF14-2_00069 | 72590..72811 | - | 222 | QIZ19902 | hypothetical protein | - |
Host bacterium
| ID | 372 | Element type | ICE (Integrative and conjugative element) |
| Element name | Tn6864 | GenBank | MT219827 |
| Element size | 108763 bp | Coordinate of oriT [Strand] | 3554..3852 [+] |
| Host bacterium | Providencia rettgeri strain RF14-2 sequence | Coordinate of element | 1..108763 |
Cargo genes
| Drug resistance gene | tet(X6), aph(6)-Id, aph(3'')-Ib, sul2, tet(C), dfrA32, ere(A), aadA2 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |