Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106183 |
| Name | oriT_p.S175-1.3  |
| Organism | Citrobacter cronae strain S175-1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP060444 (31955..33660 [+], 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_p.S175-1.3
GCCGTATGAATGACATTTATTTCCGTCCAATCCATCGAAATCAATATTTTGAGGAAATGAAAGCATGATAAAGAAACTTAAATTAATCATGTTGGCGGCAATAGTTACCGGATGTTCATCGCCACCGCCTCCCGTCCCTGTAGAGTGGGATAAAGCCGCCGTCCCATTAAATACCAGTTTACCTCAATGGAGTGATAATAACATTATAGTCCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAATATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCCGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGCGCAAAAGGCGTTATTGAATACCAGCCTGTTTTTAATTGCCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCTAATCCATTTAAGCAACACAATCTAATAAGGATTTATCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACGCCGATTTATTCCTTTGCCGCTGCCCCGTGCGAAGTTGTTCTTTGCATGTACAGAAAAGCCACAGGTAATAGTGGTGGGGGTGAATGCAGTTCAGCAGAACGCGCATTTTTTAAAATCAACGCATTTAAAAAACACCATCGTTTTAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGGGAGTGCAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAATTTGGCAGAGTGAAAGGATAACTGACATATCCATTTTGATATGAGAGGTTCGAAATGATAAACGAAGATTTATTCATTAAGAATATACACTCAAAAAATCAGGACAGAATATCTGTAGCCCTGGTATATGACACGTTATCAAAAGAAGCCCACAGAGGTTGTGGGCTGTATTACGAAATATACGAAAGCTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAAGCTGACGCAAATAAATTACGACGCTATGCCGAAAGCAAAGGCACGAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCAGGGCTGAAATATACCGCGAGCAAATGTAATCACACAAAACAAAAGTGTATTGTACACTACACAGACTAACAGGCGACGGGACTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGTAAAATCATGAAGTGGCACGCGGAAAGAAAATTCAATTTCGAAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCTTGGGGGTTTTGGCTCGGCGTTCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACAAGCCGT
GCCGTATGAATGACATTTATTTCCGTCCAATCCATCGAAATCAATATTTTGAGGAAATGAAAGCATGATAAAGAAACTTAAATTAATCATGTTGGCGGCAATAGTTACCGGATGTTCATCGCCACCGCCTCCCGTCCCTGTAGAGTGGGATAAAGCCGCCGTCCCATTAAATACCAGTTTACCTCAATGGAGTGATAATAACATTATAGTCCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAATATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCCGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGCGCAAAAGGCGTTATTGAATACCAGCCTGTTTTTAATTGCCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCTAATCCATTTAAGCAACACAATCTAATAAGGATTTATCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACGCCGATTTATTCCTTTGCCGCTGCCCCGTGCGAAGTTGTTCTTTGCATGTACAGAAAAGCCACAGGTAATAGTGGTGGGGGTGAATGCAGTTCAGCAGAACGCGCATTTTTTAAAATCAACGCATTTAAAAAACACCATCGTTTTAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGGGAGTGCAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAATTTGGCAGAGTGAAAGGATAACTGACATATCCATTTTGATATGAGAGGTTCGAAATGATAAACGAAGATTTATTCATTAAGAATATACACTCAAAAAATCAGGACAGAATATCTGTAGCCCTGGTATATGACACGTTATCAAAAGAAGCCCACAGAGGTTGTGGGCTGTATTACGAAATATACGAAAGCTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAAGCTGACGCAAATAAATTACGACGCTATGCCGAAAGCAAAGGCACGAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCAGGGCTGAAATATACCGCGAGCAAATGTAATCACACAAAACAAAAGTGTATTGTACACTACACAGACTAACAGGCGACGGGACTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGTAAAATCATGAAGTGGCACGCGGAAAGAAAATTCAATTTCGAAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCTTGGGGGTTTTGGCTCGGCGTTCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACAAGCCGT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 4161 | GenBank | WP_061586433 |
| Name | t4cp2_H3W50_RS25460_p.S175-1.3 |
UniProt ID | _ |
| Length | 912 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 912 a.a. Molecular weight: 103112.03 Da Isoelectric Point: 7.4626
>WP_061586433.1 MULTISPECIES: VirB3 family type IV secretion system protein [Enterobacteriaceae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGNAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFRRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGNAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFRRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 4162 | GenBank | WP_117140887 |
| Name | t4cp2_H3W50_RS25520_p.S175-1.3 |
UniProt ID | _ |
| Length | 578 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 578 a.a. Molecular weight: 65720.97 Da Isoelectric Point: 7.4566
>WP_117140887.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLLAGLTLPFIFHLPREERKNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKSLDNNILFRVPLWFMTIMFTASGLIFHIAARRLLAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPDPIEYNPLDYIDLKKGVFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVTATVLL
YQAILLGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKLNFQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLRDLFNTDFVQSLREDVPAFCGELEEIALVNSINATKGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDSVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKVDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTSTELPRATKMFQVQVKKENIELLSFEYK
QATPEKNESQEHKPSINL
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLLAGLTLPFIFHLPREERKNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKSLDNNILFRVPLWFMTIMFTASGLIFHIAARRLLAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPDPIEYNPLDYIDLKKGVFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVTATVLL
YQAILLGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKLNFQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLRDLFNTDFVQSLREDVPAFCGELEEIALVNSINATKGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDSVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKVDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTSTELPRATKMFQVQVKKENIELLSFEYK
QATPEKNESQEHKPSINL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 22086..35613
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| H3W50_RS25420 | 18118..18242 | + | 125 | Protein_21 | IS481 family transposase | - |
| H3W50_RS25425 | 19235..19936 | - | 702 | WP_254919869 | RepA family replication protein | - |
| H3W50_RS25430 | 20396..20752 | - | 357 | WP_032455359 | helix-turn-helix transcriptional regulator | - |
| H3W50_RS25435 | 21003..21458 | + | 456 | WP_073853220 | transcription termination/antitermination NusG family protein | - |
| H3W50_RS25440 | 21530..21745 | + | 216 | WP_061586431 | hypothetical protein | - |
| H3W50_RS25445 | 21750..21968 | + | 219 | WP_011172006 | hypothetical protein | - |
| H3W50_RS26095 | 21965..22087 | - | 123 | WP_255093128 | hypothetical protein | - |
| H3W50_RS25450 | 22086..22796 | + | 711 | WP_061586432 | lytic transglycosylase domain-containing protein | virB1 |
| H3W50_RS25455 | 22793..23098 | + | 306 | WP_012457109 | TrbC/VirB2 family protein | virB2 |
| H3W50_RS25460 | 23111..25849 | + | 2739 | WP_061586433 | VirB3 family type IV secretion system protein | virb4 |
| H3W50_RS25465 | 25868..26578 | + | 711 | WP_061586434 | type IV secretion system protein | - |
| H3W50_RS25470 | 26592..26819 | + | 228 | WP_073853223 | EexN family lipoprotein | - |
| H3W50_RS25475 | 26830..27903 | + | 1074 | WP_061586435 | type IV secretion system protein | virB6 |
| H3W50_RS25480 | 27995..28132 | + | 138 | WP_000825479 | hypothetical protein | - |
| H3W50_RS25485 | 28125..28808 | + | 684 | WP_057517071 | type IV secretion system protein | virB8 |
| H3W50_RS25490 | 28805..29713 | + | 909 | WP_088911749 | P-type conjugative transfer protein VirB9 | virB9 |
| H3W50_RS25495 | 29757..31007 | + | 1251 | WP_061586436 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| H3W50_RS25500 | 30997..32022 | + | 1026 | WP_000125558 | P-type DNA transfer ATPase VirB11 | virB11 |
| H3W50_RS25505 | 32019..32417 | + | 399 | WP_088911747 | cag pathogenicity island Cag12 family protein | - |
| H3W50_RS25510 | 32453..32758 | + | 306 | WP_241424499 | conjugal transfer protein | - |
| H3W50_RS25515 | 32792..33097 | + | 306 | WP_032152569 | hypothetical protein | - |
| H3W50_RS25520 | 33877..35613 | + | 1737 | WP_117140887 | type IV secretion system DNA-binding domain-containing protein | virb4 |
| H3W50_RS25525 | 35622..36377 | + | 756 | WP_023316386 | MobC family replication-relaxation protein | - |
Host bacterium
| ID | 6620 | GenBank | NZ_CP060444 |
| Plasmid name | p.S175-1.3 | Incompatibility group | IncFII |
| Plasmid size | 36537 bp | Coordinate of oriT [Strand] | 31955..33660 [+] |
| Host baterium | Citrobacter cronae strain S175-1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | katA |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |