Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 121359 |
| Name | oriT_pRSM030_p2  |
| Organism | Citrobacter freundii strain RSM030 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP133062 (19928..21633 [+], 1706 nt) |
| oriT length | 1706 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 1706 nt
>oriT_pRSM030_p2
GCCGTATGAATGACATTTATTTCCGTCCAATTCATCGAAACCAGTATTTTGAGGAAATGAAAGCATGATAAAGAAACTTAAAGTAATCATGTTAGCGGCAATAGTTACCGGATGTTCATCGCCGCCGCCTCCCGTTCCTGTAGAGTGGGATAAAGCCGCCGCCCCATTAAACACCAGTTTACCGCAATGGAGTGACAATAACGTTATAGTTCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAATATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCCGGTACTGCTTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGTGCAAAAGGTGTTATTGAATACCAGCCCGTCTTTAATTGCCTGACATGCAGAGAAACCACCATTTATTTATCTCGCTAATCCATTTAAACAATACAATCTAATAAGGATTTACCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACACCGTTTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCTACGGGTAATAGTGGTGGGAGTGAATGCAGTTCAGCAGAACGCGCATTTTTTAAAATCAACGCCTTTAAAAAACACCATCGTTTTAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGCGAATGTAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAGTTTGGCAGAGTGAAAGGATAACTGACATATCCATTTTGATATGAGAGGTTCGAAATGATAAACGAAGATTTATTCATTAATAATCTACACTCAAAAAATCAGGACAGAATATCTGTAGCCCTGGTATATGACACGTTATCAAAAGAAGCCCACAGAGGTTGTGGGCTGTATTACGAAATATACGAAAGCTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAAGCTGACGCAAATAAATTACGACGCTATGCCGAAAGCAAAGGCACGAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCAGGGCTGAAATATACCGCGAGCAAATGTAATCACACAAAACAAATGTGTATTGTACAATACACAGACTAACAGGCGACGGGACTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGAAAAATAATGAAGTGGTACGCGGAAAGAAAATTCAATTTCGAAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCTTGGGGGTTTTGGCTCGGCGTCCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACACGCCGT
GCCGTATGAATGACATTTATTTCCGTCCAATTCATCGAAACCAGTATTTTGAGGAAATGAAAGCATGATAAAGAAACTTAAAGTAATCATGTTAGCGGCAATAGTTACCGGATGTTCATCGCCGCCGCCTCCCGTTCCTGTAGAGTGGGATAAAGCCGCCGCCCCATTAAACACCAGTTTACCGCAATGGAGTGACAATAACGTTATAGTTCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAATATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCCGGTACTGCTTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGTGCAAAAGGTGTTATTGAATACCAGCCCGTCTTTAATTGCCTGACATGCAGAGAAACCACCATTTATTTATCTCGCTAATCCATTTAAACAATACAATCTAATAAGGATTTACCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACACCGTTTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCTACGGGTAATAGTGGTGGGAGTGAATGCAGTTCAGCAGAACGCGCATTTTTTAAAATCAACGCCTTTAAAAAACACCATCGTTTTAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGCGAATGTAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAGTTTGGCAGAGTGAAAGGATAACTGACATATCCATTTTGATATGAGAGGTTCGAAATGATAAACGAAGATTTATTCATTAATAATCTACACTCAAAAAATCAGGACAGAATATCTGTAGCCCTGGTATATGACACGTTATCAAAAGAAGCCCACAGAGGTTGTGGGCTGTATTACGAAATATACGAAAGCTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAAGCTGACGCAAATAAATTACGACGCTATGCCGAAAGCAAAGGCACGAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCAGGGCTGAAATATACCGCGAGCAAATGTAATCACACAAAACAAATGTGTATTGTACAATACACAGACTAACAGGCGACGGGACTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGAAAAATAATGAAGTGGTACGCGGAAAGAAAATTCAATTTCGAAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCTTGGGGGTTTTGGCTCGGCGTCCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACACGCCGT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 15782 | GenBank | WP_012457110 |
| Name | t4cp2_RBT00_RS23590_pRSM030_p2 |
UniProt ID | _ |
| Length | 912 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 912 a.a. Molecular weight: 103056.99 Da Isoelectric Point: 7.4625
>WP_012457110.1 MULTISPECIES: VirB3 family type IV secretion system protein [Enterobacterales]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 15783 | GenBank | WP_061808661 |
| Name | t4cp2_RBT00_RS23650_pRSM030_p2 |
UniProt ID | _ |
| Length | 578 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 578 a.a. Molecular weight: 65605.82 Da Isoelectric Point: 7.4566
>WP_061808661.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacterales]
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLLAGLTLPFIFHLPREERKNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKSLDNNILFRVPLWIMTIIFTAAGLIFHIAARRLLAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPDPIEYNPLDYIDLKKGVFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVTATVLL
YQAILLGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKLNSQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLRDLFNTDFVQSLREDVPAFCGELEEIALVNSINAKNGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDSVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKVDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTSTELPRATKMFQVQVKKENIELLSFEYK
QATPEKNESQEHKPSINL
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLLAGLTLPFIFHLPREERKNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKSLDNNILFRVPLWIMTIIFTAAGLIFHIAARRLLAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPDPIEYNPLDYIDLKKGVFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVTATVLL
YQAILLGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKLNSQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLRDLFNTDFVQSLREDVPAFCGELEEIALVNSINAKNGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDSVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKVDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTSTELPRATKMFQVQVKKENIELLSFEYK
QATPEKNESQEHKPSINL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 10064..23586
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| RBT00_RS23540 (RBT00_23540) | 5452..5667 | - | 216 | Protein_3 | IS5/IS1182 family transposase | - |
| RBT00_RS23545 (RBT00_23545) | 5756..6037 | - | 282 | WP_000780222 | helix-turn-helix transcriptional regulator | - |
| RBT00_RS23550 (RBT00_23550) | 6018..6347 | - | 330 | WP_071687797 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| RBT00_RS23555 (RBT00_23555) | 7209..7910 | - | 702 | WP_258963807 | RepA family replication protein | - |
| RBT00_RS23560 (RBT00_23560) | 8370..8729 | - | 360 | WP_034950652 | helix-turn-helix transcriptional regulator | - |
| RBT00_RS23565 (RBT00_23565) | 8981..9436 | + | 456 | WP_009309974 | transcription termination/antitermination NusG family protein | - |
| RBT00_RS23570 (RBT00_23570) | 9508..9723 | + | 216 | WP_004178170 | hypothetical protein | - |
| RBT00_RS23575 (RBT00_23575) | 9728..9946 | + | 219 | WP_004178172 | hypothetical protein | - |
| RBT00_RS23580 (RBT00_23580) | 10064..10774 | + | 711 | WP_004178175 | lytic transglycosylase domain-containing protein | virB1 |
| RBT00_RS23585 (RBT00_23585) | 10771..11076 | + | 306 | WP_012457109 | TrbC/VirB2 family protein | virB2 |
| RBT00_RS23590 (RBT00_23590) | 11089..13827 | + | 2739 | WP_012457110 | VirB3 family type IV secretion system protein | virb4 |
| RBT00_RS23595 (RBT00_23595) | 13845..14549 | + | 705 | WP_045895962 | type IV secretion system protein | - |
| RBT00_RS23600 (RBT00_23600) | 14563..14790 | + | 228 | WP_059321746 | EexN family lipoprotein | - |
| RBT00_RS23605 (RBT00_23605) | 14801..15874 | + | 1074 | WP_045895964 | type IV secretion system protein | virB6 |
| RBT00_RS23610 (RBT00_23610) | 15966..16103 | + | 138 | WP_000825479 | hypothetical protein | - |
| RBT00_RS23615 (RBT00_23615) | 16096..16779 | + | 684 | WP_045895965 | type IV secretion system protein | virB8 |
| RBT00_RS23620 (RBT00_23620) | 16776..17684 | + | 909 | WP_077874239 | P-type conjugative transfer protein VirB9 | virB9 |
| RBT00_RS23625 (RBT00_23625) | 17731..18969 | + | 1239 | Protein_20 | VirB10/TraB/TrbI family type IV secretion system protein | - |
| RBT00_RS23630 (RBT00_23630) | 18970..19995 | + | 1026 | WP_045895968 | P-type DNA transfer ATPase VirB11 | virB11 |
| RBT00_RS23635 (RBT00_23635) | 19992..20390 | + | 399 | WP_071687791 | cag pathogenicity island Cag12 family protein | - |
| RBT00_RS23640 (RBT00_23640) | 20426..20731 | + | 306 | WP_045895969 | conjugal transfer protein | - |
| RBT00_RS23645 (RBT00_23645) | 20765..21070 | + | 306 | WP_059321833 | hypothetical protein | - |
| RBT00_RS23650 (RBT00_23650) | 21850..23586 | + | 1737 | WP_061808661 | type IV secretory system conjugative DNA transfer family protein | virb4 |
| RBT00_RS23655 (RBT00_23655) | 23595..24350 | + | 756 | WP_023316386 | MobC family replication-relaxation protein | - |
| RBT00_RS23660 (RBT00_23660) | 24387..24860 | + | 474 | WP_071687792 | thermonuclease family protein | - |
| RBT00_RS23665 (RBT00_23665) | 24921..25262 | + | 342 | WP_011172022 | hypothetical protein | - |
| RBT00_RS23670 (RBT00_23670) | 25300..25533 | - | 234 | WP_004178129 | hypothetical protein | - |
| RBT00_RS23675 (RBT00_23675) | 25574..26221 | - | 648 | WP_308463659 | ParA family protein | - |
| RBT00_RS23680 (RBT00_23680) | 26427..27107 | - | 681 | WP_071687793 | hypothetical protein | - |
Host bacterium
| ID | 21786 | GenBank | NZ_CP133062 |
| Plasmid name | pRSM030_p2 | Incompatibility group | IncFII |
| Plasmid size | 28071 bp | Coordinate of oriT [Strand] | 19928..21633 [+] |
| Host baterium | Citrobacter freundii strain RSM030 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |