Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 102640 |
| Name | oriT_SYAU1|unnamed1  |
| Organism | Escherichia coli strain SYAU1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_LNUG01000038 (14598..14721 [-], 124 nt) |
| oriT length | 124 nt |
| IRs (inverted repeats) | 101..106, 119..124 (TTTAAT..ATTAAA) 91..99, 113..121 (AATAATGTA..TACATTATT) 90..95, 107..112 (AAATAA..TTATTT) 39..46, 49..56 (GCAAAAAC..GTTTTTGC) 3..10, 15..22 (TTGGTGGT..ACCACCAA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 124 nt
>oriT_SYAU1|unnamed1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 1590 | GenBank | WP_001064268 |
| Name | traC_AYM06_RS24595_SYAU1|unnamed1 |
UniProt ID | _ |
| Length | 875 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 875 a.a. Molecular weight: 99248.97 Da Isoelectric Point: 6.0801
>WP_001064268.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNKARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNKARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 924..15293
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| AYM06_RS24560 | 67..927 | - | 861 | Protein_0 | conjugal transfer protein TraN | - |
| AYM06_RS24565 | 924..1562 | - | 639 | WP_001104248 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| AYM06_RS24570 | 1590..2042 | - | 453 | WP_000069427 | hypothetical protein | - |
| AYM06_RS24575 | 2072..2533 | - | 462 | WP_000277845 | hypothetical protein | - |
| AYM06_RS24580 | 2559..3551 | - | 993 | WP_000830839 | conjugal transfer pilus assembly protein TraU | traU |
| AYM06_RS24585 | 3548..4180 | - | 633 | WP_001203745 | type-F conjugative transfer system protein TraW | traW |
| AYM06_RS24590 | 4177..4563 | - | 387 | WP_000214084 | type-F conjugative transfer system protein TrbI | - |
| AYM06_RS24595 | 4560..7187 | - | 2628 | WP_001064268 | type IV secretion system protein TraC | virb4 |
| AYM06_RS27425 | 7347..7568 | - | 222 | WP_001278689 | conjugal transfer protein TraR | - |
| AYM06_RS24600 | 7703..8218 | - | 516 | WP_000809906 | type IV conjugative transfer system lipoprotein TraV | traV |
| AYM06_RS24605 | 8215..8466 | - | 252 | WP_001038341 | conjugal transfer protein TrbG | - |
| AYM06_RS24610 | 8463..8780 | - | 318 | WP_001057292 | conjugal transfer protein TrbD | virb4 |
| AYM06_RS24615 | 8777..9349 | - | 573 | WP_000002780 | conjugal transfer pilus-stabilizing protein TraP | - |
| AYM06_RS24620 | 9339..10766 | - | 1428 | WP_000146685 | F-type conjugal transfer pilus assembly protein TraB | traB |
| AYM06_RS24625 | 10766..11494 | - | 729 | WP_001230787 | type-F conjugative transfer system secretin TraK | traK |
| AYM06_RS24630 | 11481..12047 | - | 567 | WP_000399792 | type IV conjugative transfer system protein TraE | traE |
| AYM06_RS24635 | 12069..12380 | - | 312 | WP_000012106 | type IV conjugative transfer system protein TraL | traL |
| AYM06_RS24640 | 12395..12754 | - | 360 | WP_000340272 | type IV conjugative transfer system pilin TraA | - |
| AYM06_RS24645 | 12788..13015 | - | 228 | WP_001254386 | conjugal transfer relaxosome protein TraY | - |
| AYM06_RS24650 | 13109..13795 | - | 687 | WP_000332484 | PAS domain-containing protein | - |
| AYM06_RS24655 | 13986..14369 | - | 384 | WP_000124981 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| AYM06_RS24660 | 14646..15293 | + | 648 | WP_000614936 | transglycosylase SLT domain-containing protein | virB1 |
| AYM06_RS24665 | 15590..16411 | - | 822 | WP_001234469 | DUF932 domain-containing protein | - |
| AYM06_RS24670 | 16533..16820 | - | 288 | WP_000107535 | hypothetical protein | - |
| AYM06_RS24675 | 16845..17051 | - | 207 | WP_000547939 | hypothetical protein | - |
Host bacterium
| ID | 3084 | GenBank | NZ_LNUG01000038 |
| Plasmid name | SYAU1|unnamed1 | Incompatibility group | - |
| Plasmid size | 17153 bp | Coordinate of oriT [Strand] | 14598..14721 [-] |
| Host baterium | Escherichia coli strain SYAU1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |