Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200360 |
| Name | oriT_ICEOrhORT-UMN88-1  |
| Organism | Ornithobacterium rhinotracheale ORT-UMN 88 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP006828 (26549..26745 [-], 197 nt) |
| oriT length | 197 nt |
| IRs (inverted repeats) | 22..27, 34..39 (AACATA..TATGTT) 10..17, 20..27 (TATGTTCA..TGAACATA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 197 nt
>oriT_ICEOrhORT-UMN88-1
ACGGATTTTTATGTTCACCTGAACATAGCAAGGTATGTTTTCAGCCGCTCAAAATATTTTGAGCATCCCGGAAAACGCCTTGCCCTTGCAGGGGGCGGGCTTTCCCTCCGAAGTCGGGAAGCCTTTCAAAACTGCGGTGCTGTAATCCGAAGCGGCGGCTTATGCCGTCAATCCGCTAAATCCAAAGTAATATGAAA
ACGGATTTTTATGTTCACCTGAACATAGCAAGGTATGTTTTCAGCCGCTCAAAATATTTTGAGCATCCCGGAAAACGCCTTGCCCTTGCAGGGGGCGGGCTTTCCCTCCGAAGTCGGGAAGCCTTTCAAAACTGCGGTGCTGTAATCCGAAGCGGCGGCTTATGCCGTCAATCCGCTAAATCCAAAGTAATATGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14388 | GenBank | AIQ00007 |
| Name | Relaxase_Q785_10560_ICEOrhORT-UMN88-1 |
UniProt ID | _ |
| Length | 415 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 415 a.a. Molecular weight: 46605.00 Da Isoelectric Point: 9.8725
>AIQ00007.1 relaxase [Ornithobacterium rhinotracheale ORT-UMN 88]
MVAKISVGNSLYGAIAYNGEKINEAQGRLLTTNRIYNDGSGKVDINKAMEGFLTFMPPQMKVEKPVVHIS
LNPHPEDALTDAELQDIAREYLEKLGFGNQPYLVFKHEDIDRHHLHIVTVRVDENGKCISDKNNYYRSKQ
ITRELEKKYGLHDVERRNRRLDTPLSKVDASAGDVKKQVGNTVKALNGQYRFQTMGEYRALLSIYNLTVE
EARGNVRGREYHGLVYSVTDGRGNKVGNPFKSSLFGKSAGYEAMQKKFVRSRSEIKDRKLADMTKRTVLS
VLQGTYDKDRFVSQLKEKGIDTVLRYTEEGRIYGATFIDHRTGSVLNGSRMGKELSANALQEHFTLPYAG
QPPIPLSIPMDAADKAHGQTAYDREDVSGGMGLLTPEGPAVDAEEEAFIRAMKRKKKKKRKGLGL
MVAKISVGNSLYGAIAYNGEKINEAQGRLLTTNRIYNDGSGKVDINKAMEGFLTFMPPQMKVEKPVVHIS
LNPHPEDALTDAELQDIAREYLEKLGFGNQPYLVFKHEDIDRHHLHIVTVRVDENGKCISDKNNYYRSKQ
ITRELEKKYGLHDVERRNRRLDTPLSKVDASAGDVKKQVGNTVKALNGQYRFQTMGEYRALLSIYNLTVE
EARGNVRGREYHGLVYSVTDGRGNKVGNPFKSSLFGKSAGYEAMQKKFVRSRSEIKDRKLADMTKRTVLS
VLQGTYDKDRFVSQLKEKGIDTVLRYTEEGRIYGATFIDHRTGSVLNGSRMGKELSANALQEHFTLPYAG
QPPIPLSIPMDAADKAHGQTAYDREDVSGGMGLLTPEGPAVDAEEEAFIRAMKRKKKKKRKGLGL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16889 | GenBank | AIQ00006 |
| Name | t4cp2_Q785_10555_ICEOrhORT-UMN88-1 |
UniProt ID | _ |
| Length | 669 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 669 a.a. Molecular weight: 76724.70 Da Isoelectric Point: 7.3531
>AIQ00006.1 conjugal transfer protein TraG [Ornithobacterium rhinotracheale ORT-UMN 88]
MSQQEDDLRALAKIMDFLRAVSIILVVMNVYWFCYEAIRLWGVNIGVVDKILLNFDRTAGLFHSILYTKL
FAVLLLALSCLGTKGVKGEKITWGRIWTALAAGFVLFFLNWWILALPLPVEAVTGLYILTIGTGYVCLLM
GGLWMSRLLKHNLMEDVFNNENESFMQETRLIESEYSVNLPTRFYYKKRWNNGWINVVNPFRASIVLGTP
GSGKSYAVVNNFIKQQIEKGFSMYVYDFKFSDLSTIAYNHLLNHPEGYKVKPKFYVINFDDPRRSHRCNP
IHPDFMEDITDAYESAYTIMLNLNKTWVQKQGDFFVESPIILFASIIWYLKIYQNGKYCTFPHAIEFLNR
RYEDIFPILTSYPELENYLSPFMDAWLGGAAEQLMGQIASAKIPLSRMISPQLYWVMSDSEFTLDINNPE
EPKILCVGNNPDRQNIYGAALGLYNSRIVKLINKKGMLKSSVIIDELPTIYFKGLDNLIATARSNKVAVC
LGFQDFSQLVRDYGDKEAKVVMNTVGNIFSGQVVGETAKTLSERFGKVLQKRQSISINRQDVSTSINTQM
DALIPPSKISGLTQGMFVGSVSDNFNERIEQKIFHCEIVVDAEKVKREERAYKKIPVITDFTDEDGNDRM
KETVQANYRRIKEEVKQIVQEELERIAGDDNLKYLLQQK
MSQQEDDLRALAKIMDFLRAVSIILVVMNVYWFCYEAIRLWGVNIGVVDKILLNFDRTAGLFHSILYTKL
FAVLLLALSCLGTKGVKGEKITWGRIWTALAAGFVLFFLNWWILALPLPVEAVTGLYILTIGTGYVCLLM
GGLWMSRLLKHNLMEDVFNNENESFMQETRLIESEYSVNLPTRFYYKKRWNNGWINVVNPFRASIVLGTP
GSGKSYAVVNNFIKQQIEKGFSMYVYDFKFSDLSTIAYNHLLNHPEGYKVKPKFYVINFDDPRRSHRCNP
IHPDFMEDITDAYESAYTIMLNLNKTWVQKQGDFFVESPIILFASIIWYLKIYQNGKYCTFPHAIEFLNR
RYEDIFPILTSYPELENYLSPFMDAWLGGAAEQLMGQIASAKIPLSRMISPQLYWVMSDSEFTLDINNPE
EPKILCVGNNPDRQNIYGAALGLYNSRIVKLINKKGMLKSSVIIDELPTIYFKGLDNLIATARSNKVAVC
LGFQDFSQLVRDYGDKEAKVVMNTVGNIFSGQVVGETAKTLSERFGKVLQKRQSISINRQDVSTSINTQM
DALIPPSKISGLTQGMFVGSVSDNFNERIEQKIFHCEIVVDAEKVKREERAYKKIPVITDFTDEDGNDRM
KETVQANYRRIKEEVKQIVQEELERIAGDDNLKYLLQQK
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 2146845..2157429
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| Q785_10560 | 2141976..2143223 | - | 1248 | AIQ00007 | relaxase | - |
| Q785_10565 | 2143202..2143630 | - | 429 | AIQ00008 | MobA protein | - |
| Q785_10575 | 2144339..2145100 | + | 762 | AIQ00009 | conjugal transfer protein TraA | - |
| Q785_10580 | 2145097..2145543 | + | 447 | AIQ00010 | conjugate transposon protein | - |
| Q785_10585 | 2145546..2145899 | + | 354 | AIQ00011 | conjugal transfer protein TraB | - |
| Q785_10590 | 2145933..2146643 | + | 711 | AIQ00012 | conjugal transfer protein TraD | - |
| Q785_10595 | 2146845..2147162 | + | 318 | AIQ00013 | conjugate transposon protein | traE |
| Q785_10600 | 2147173..2147505 | + | 333 | AIQ00014 | conjugate transposon protein | traF |
| Q785_10605 | 2147502..2150018 | + | 2517 | AIQ00015 | conjugate transposon protein | virb4 |
| Q785_10610 | 2150053..2150433 | + | 381 | AIQ00016 | conjugal transfer protein TraH | traH |
| Q785_10615 | 2150457..2151086 | + | 630 | AIQ00017 | conjugate transposon protein | traI |
| Q785_10620 | 2151091..2152095 | + | 1005 | AIQ00018 | conjugal transfer protein | traJ |
| Q785_10625 | 2152127..2152750 | + | 624 | AIQ00019 | conjugal transfer protein | traK |
| Q785_10630 | 2152757..2153077 | + | 321 | AIQ00020 | conjugal transfer protein TraL | traL |
| Q785_10635 | 2153058..2154404 | + | 1347 | AIQ00021 | conjugate transposon protein | traM |
| Q785_10640 | 2154453..2155442 | + | 990 | AIQ00022 | conjugate transposon protein | traN |
| Q785_10645 | 2155445..2156020 | + | 576 | AIQ00023 | conjugal transfer protein TraO | traO |
| Q785_10650 | 2156028..2156897 | + | 870 | AIQ00024 | CHC2 zinc finger domain protein | traP |
| Q785_10655 | 2156926..2157429 | + | 504 | AIQ00025 | conjugal transfer protein TraQ | traQ |
| Q785_10660 | 2157426..2157953 | + | 528 | AIQ00026 | lysozyme | - |
| Q785_10665 | 2158015..2158227 | - | 213 | AIQ00027 | hypothetical protein | - |
| Q785_10670 | 2158251..2159321 | - | 1071 | AIQ00028 | hypothetical protein | - |
| Q785_10680 | 2159842..2160144 | - | 303 | AIQ00029 | hypothetical protein | - |
| Q785_10685 | 2160334..2160591 | - | 258 | AIQ00030 | hypothetical protein | - |
| Q785_10690 | 2160616..2161947 | - | 1332 | AIQ00031 | hypothetical protein | - |
| Q785_10695 | 2161944..2162360 | - | 417 | AIQ00032 | PcfK-like protein | - |
Host bacterium
| ID | 317 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEOrhORT-UMN88-1 | GenBank | CP006828 |
| Element size | 2397867 bp | Coordinate of oriT [Strand] | 26549..26745 [-] |
| Host bacterium | Ornithobacterium rhinotracheale ORT-UMN 88 | Coordinate of element | 2117077..2164100 |
Cargo genes
| Drug resistance gene | tet(Q) |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIIA9 |