Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 104479 |
| Name | oriT_STIN_87|unnamed2  |
| Organism | Shigella flexneri strain STIN_87 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP054994 (71804..72155 [+], 352 nt) |
| oriT length | 352 nt |
| IRs (inverted repeats) | 192..198, 206..212 (TATAAAA..TTTTATA) 197..202, 204..209 (AAAACA..TGTTTT) 104..110, 118..124 (TTTAAAT..ATTTAAA) 106..111, 113..118 (TAAATC..GATTTA) 93..98, 106..111 (GATTTA..TAAATC) 40..47, 50..57 (GCAAAAAC..GTTTTTGC) 4..11, 16..23 (TTGGTGGT..ACCACCAA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 352 nt
>oriT_STIN_87|unnamed2
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTATCTTTAATATCATTGAGTTGTATTTGTGGATTTATATTGTTTAAATCAGATTTATTTAAAACAGCGGTGTAGGCGCGGCTATGGCACCGTGTCTGCACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTGTTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGTCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCACTATGAATTCCAGTGTTTCGAAATTAACTTTATTTTATGTTTAAAAAAGGTAATCTCTA
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTATCTTTAATATCATTGAGTTGTATTTGTGGATTTATATTGTTTAAATCAGATTTATTTAAAACAGCGGTGTAGGCGCGGCTATGGCACCGTGTCTGCACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTGTTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGTCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCACTATGAATTCCAGTGTTTCGAAATTAACTTTATTTTATGTTTAAAAAAGGTAATCTCTA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 71233..78576
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HUZ57_RS24165 (HUZ57_23945) | 66348..66764 | + | 417 | Protein_81 | DUF1281 domain-containing protein | - |
| HUZ57_RS24170 (HUZ57_23950) | 66775..67140 | + | 366 | Protein_82 | hypothetical protein | - |
| HUZ57_RS24175 (HUZ57_23955) | 67195..67629 | + | 435 | WP_000845928 | conjugation system SOS inhibitor PsiB | - |
| HUZ57_RS24180 (HUZ57_23960) | 67626..68345 | + | 720 | WP_000116341 | plasmid SOS inhibition protein A | - |
| HUZ57_RS24185 | 68562..68714 | + | 153 | Protein_85 | DUF5431 family protein | - |
| HUZ57_RS24190 (HUZ57_23965) | 68659..68781 | + | 123 | WP_223200913 | Hok/Gef family protein | - |
| HUZ57_RS24195 | 69247..69408 | - | 162 | Protein_87 | hypothetical protein | - |
| HUZ57_RS24200 (HUZ57_23970) | 69478..69684 | + | 207 | WP_000547959 | hypothetical protein | - |
| HUZ57_RS24205 (HUZ57_23975) | 69709..69996 | + | 288 | WP_000107534 | hypothetical protein | - |
| HUZ57_RS24210 (HUZ57_23980) | 70116..70937 | + | 822 | WP_001234475 | DUF932 domain-containing protein | - |
| HUZ57_RS24215 (HUZ57_23985) | 71233..71880 | - | 648 | WP_000601040 | transglycosylase SLT domain-containing protein | virB1 |
| HUZ57_RS24220 (HUZ57_23990) | 72156..72539 | + | 384 | WP_001151533 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| HUZ57_RS24225 (HUZ57_23995) | 72731..73378 | + | 648 | WP_000332517 | conjugal transfer transcriptional regulator TraJ | - |
| HUZ57_RS24230 (HUZ57_24000) | 73514..73729 | + | 216 | WP_000086380 | conjugal transfer relaxosome protein TraY | - |
| HUZ57_RS24235 (HUZ57_24005) | 73772..74134 | + | 363 | WP_000340279 | type IV conjugative transfer system pilin TraA | - |
| HUZ57_RS24240 (HUZ57_24010) | 74139..74450 | + | 312 | WP_000012106 | type IV conjugative transfer system protein TraL | traL |
| HUZ57_RS24245 (HUZ57_24015) | 74472..75038 | + | 567 | WP_000399793 | type IV conjugative transfer system protein TraE | traE |
| HUZ57_RS24250 (HUZ57_24020) | 75025..75753 | + | 729 | WP_001230787 | type-F conjugative transfer system secretin TraK | traK |
| HUZ57_RS24255 (HUZ57_24025) | 75753..77180 | + | 1428 | WP_000146688 | F-type conjugal transfer pilus assembly protein TraB | traB |
| HUZ57_RS24260 (HUZ57_24030) | 77170..77757 | + | 588 | WP_000002772 | conjugal transfer pilus-stabilizing protein TraP | - |
| HUZ57_RS24265 (HUZ57_24035) | 77744..78064 | + | 321 | WP_001057283 | conjugal transfer protein TrbD | - |
| HUZ57_RS24270 (HUZ57_24040) | 78061..78576 | + | 516 | WP_000724020 | type IV conjugative transfer system lipoprotein TraV | traV |
| HUZ57_RS24275 (HUZ57_24045) | 78711..78932 | + | 222 | WP_001278689 | conjugal transfer protein TraR | - |
| HUZ57_RS24280 (HUZ57_24050) | 79092..80551 | + | 1460 | Protein_104 | TraC family protein | - |
| HUZ57_RS24285 (HUZ57_24055) | 80547..80711 | + | 165 | Protein_105 | conjugal transfer protein TraU | - |
| HUZ57_RS24290 (HUZ57_24060) | 80708..81664 | + | 957 | Protein_106 | conjugal transfer pilus assembly protein TraU | - |
| HUZ57_RS24295 (HUZ57_24065) | 81669..82145 | + | 477 | Protein_107 | TraD N-terminal domain-containing protein | - |
| HUZ57_RS25085 | 82144..82611 | + | 468 | Protein_108 | hypothetical protein | - |
| HUZ57_RS24305 (HUZ57_24075) | 82928..83080 | - | 153 | Protein_109 | IS3 family transposase | - |
Host bacterium
| ID | 4918 | GenBank | NZ_CP054994 |
| Plasmid name | STIN_87|unnamed2 | Incompatibility group | IncFII |
| Plasmid size | 84141 bp | Coordinate of oriT [Strand] | 71804..72155 [+] |
| Host baterium | Shigella flexneri strain STIN_87 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | faeC, faeD, faeE, faeF, faeG, faeH, faeI, faeJ |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |