Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200476 |
| Name | oriT_ICEXcaVe85-1  |
| Organism | Xanthomonas campestris pv. vesicatoria |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | AM039952 (101397..101714 [+], 318 nt) |
| oriT length | 318 nt |
| IRs (inverted repeats) | 197..202, 207..212 (TTTAAA..TTTAAA) 188..194, 199..205 (CCCTTTA..TAAAGGG) 34..39, 41..46 (GGAACG..CGTTCC) |
| Location of nic site | 19..20 |
| Conserved sequence flanking the nic site |
TCGTGCCTGC |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 318 nt
>oriT_ICEXcaVe85-1
CCATGGCCGAGCGGTCGTGCCTGCGCCAGCGAAGGAACGTCGTTCCCGCGCCAGTTGCCTGCTGGGCCAGCTCCACGGGCAGCAGATGGAAGGGATGCCCGGCTGCCTGTTGCAGCACCTGTCGCTGCGCCAAGCCAATCAATTCGTCGCGCATGGCGAAGCACTGGCTGGCCCAGGCCTCCAAGTCCCCTTTACCTTTAAAGGGTTTTAAAAGGCCTTTTTGAGAGCCTGCGTGTTCCAGCCTCATGAAGGCGGTCTGTTGCAGGGGACGGAAGTAGCGGGTTTCGCGATTCGGGTCGCTCATGCCTGCTCGTCCTC
CCATGGCCGAGCGGTCGTGCCTGCGCCAGCGAAGGAACGTCGTTCCCGCGCCAGTTGCCTGCTGGGCCAGCTCCACGGGCAGCAGATGGAAGGGATGCCCGGCTGCCTGTTGCAGCACCTGTCGCTGCGCCAAGCCAATCAATTCGTCGCGCATGGCGAAGCACTGGCTGGCCCAGGCCTCCAAGTCCCCTTTACCTTTAAAGGGTTTTAAAAGGCCTTTTTGAGAGCCTGCGTGTTCCAGCCTCATGAAGGCGGTCTGTTGCAGGGGACGGAAGTAGCGGGTTTCGCGATTCGGGTCGCTCATGCCTGCTCGTCCTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14513 | GenBank | CAJ24033 |
| Name | TraI_2_XCV2356_ICEXcaVe85-1 |
UniProt ID | _ |
| Length | 610 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 610 a.a. Molecular weight: 66988.24 Da Isoelectric Point: 6.8482
>CAJ24033.1 conserved hypothetical protein [Xanthomonas euvesicatoria pv. vesicatoria str. 85-10]
MLSLFQRKRPPVAAAPSPPPAIDLPKGLMRPESAASLLATPRRQKLLEHIWQRTSLSRRQFATLYRAPLE
RYAELVQGFPASEAHHHAYLGGMLDHGLEIVAYGLKLRQSHLLPVGASPEDQAAQAEAWTAAVAYAALLH
DIGKVAVDLHVELADGSTWHPWHGPLRQPYRFRYRDDREYRLHSAATGLLYRQLLDRDLLDWLSGYPSLW
APLLYVLAGQYEHAGVLGELVVQADRASVAQELGGDPARAMAAPKHSLQRKLVNGLRYLLKEELKLNQPE
ASDGWLTEDALWLVSKTVSDKLRAHLLSQGVDGIPANNTAVFNVLQDHRMLQPTAEGKAIWRATVTSSTG
WSHSFTLLRLAPALIWEPDERPPPFAGTVAIDTAPADKEAEASLPLPVDGKTSTVESQEAPPWEGGSIAP
SPQAKAPAMPDVMEDMLAMVGMGDSPDATQNAEAILDKAPAAPPNTAAPVPAPVPVPTSSATQPSGEHFM
AWLQQGIASHRLIINDAKALVHTVSDTGYLVSPGVFQRYAQEHLQVGALAKQENLQDWQWVQKRFERLQL
HRKHANGLNIWTCEVTGPRKSRRLHGYLLQDPAGLFGELPPNNPYLSVQP
MLSLFQRKRPPVAAAPSPPPAIDLPKGLMRPESAASLLATPRRQKLLEHIWQRTSLSRRQFATLYRAPLE
RYAELVQGFPASEAHHHAYLGGMLDHGLEIVAYGLKLRQSHLLPVGASPEDQAAQAEAWTAAVAYAALLH
DIGKVAVDLHVELADGSTWHPWHGPLRQPYRFRYRDDREYRLHSAATGLLYRQLLDRDLLDWLSGYPSLW
APLLYVLAGQYEHAGVLGELVVQADRASVAQELGGDPARAMAAPKHSLQRKLVNGLRYLLKEELKLNQPE
ASDGWLTEDALWLVSKTVSDKLRAHLLSQGVDGIPANNTAVFNVLQDHRMLQPTAEGKAIWRATVTSSTG
WSHSFTLLRLAPALIWEPDERPPPFAGTVAIDTAPADKEAEASLPLPVDGKTSTVESQEAPPWEGGSIAP
SPQAKAPAMPDVMEDMLAMVGMGDSPDATQNAEAILDKAPAAPPNTAAPVPAPVPVPTSSATQPSGEHFM
AWLQQGIASHRLIINDAKALVHTVSDTGYLVSPGVFQRYAQEHLQVGALAKQENLQDWQWVQKRFERLQL
HRKHANGLNIWTCEVTGPRKSRRLHGYLLQDPAGLFGELPPNNPYLSVQP
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 17129 | GenBank | CAJ24054 |
| Name | t4cp2_XCV2377_ICEXcaVe85-1 |
UniProt ID | _ |
| Length | 730 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 730 a.a. Molecular weight: 81015.72 Da Isoelectric Point: 7.3316
>CAJ24054.1 putative membrane protein [Xanthomonas euvesicatoria pv. vesicatoria str. 85-10]
MSGKQPVEVLLRPAVELYTVAACAGAAFLSLVAPWSLALSPAMGVGSALAFGAYGAIRYRDARVILRYRR
NIRRLPRYVMTSRDVPVSQQRLFVGRGFLWEQKHTHRLMQTYRPEFRRYAEPTPAYRLARRLEERLEFAP
FPLSRLPALTGWDVPFNPVRPLPPVGGLPRLHGIEPDEVDVSLPLGERVGHSLVLGTTRVGKTRLAELFV
TQDIRRKNAADEHEVVIVIDPKGDADLLKRMYVEAKRAGREREFYVFHLGWPDISARYNAVGRFGRISEV
ATRVAGQLSGEGNSAAFREFAWRFVNIIARALVELGQRPDYMLIQRHVINIDALFIEYAQHYFAKTEPKA
WEVIVQIEAKLNEKNIPRNMIGREKRVVALEQYLSQARNYDPVLDGLRSAVRYDKTYFDKIVASLLPLLE
KLTSGKIAQLLAPNYSDLTDPRPIFDWMQIIRKRAIVYVGLDALSDAEVAAAVGNSMFSDLVSVAGHIYK
HGIDDGLPGASAGARVPINVHADEFNELMGDEFIPLINKGGGAGLQVTAYTQTLSDIEARIGNRAKAGQV
IGNFNNLFMLRVREAATAELLTRQLPKVEVYTTTIVSGATDSSDIRGATDFTSNTQDRISMSSVPMIEPS
HVVGLPKGQCFALLQGGQLWKVRMPLPAPDPDEVMPADLQQLAGYMRQSYSEATQWWEFTSSPALQETGL
PDDLLDDAAPAEPPAVATVSDDGAGNEASQ
MSGKQPVEVLLRPAVELYTVAACAGAAFLSLVAPWSLALSPAMGVGSALAFGAYGAIRYRDARVILRYRR
NIRRLPRYVMTSRDVPVSQQRLFVGRGFLWEQKHTHRLMQTYRPEFRRYAEPTPAYRLARRLEERLEFAP
FPLSRLPALTGWDVPFNPVRPLPPVGGLPRLHGIEPDEVDVSLPLGERVGHSLVLGTTRVGKTRLAELFV
TQDIRRKNAADEHEVVIVIDPKGDADLLKRMYVEAKRAGREREFYVFHLGWPDISARYNAVGRFGRISEV
ATRVAGQLSGEGNSAAFREFAWRFVNIIARALVELGQRPDYMLIQRHVINIDALFIEYAQHYFAKTEPKA
WEVIVQIEAKLNEKNIPRNMIGREKRVVALEQYLSQARNYDPVLDGLRSAVRYDKTYFDKIVASLLPLLE
KLTSGKIAQLLAPNYSDLTDPRPIFDWMQIIRKRAIVYVGLDALSDAEVAAAVGNSMFSDLVSVAGHIYK
HGIDDGLPGASAGARVPINVHADEFNELMGDEFIPLINKGGGAGLQVTAYTQTLSDIEARIGNRAKAGQV
IGNFNNLFMLRVREAATAELLTRQLPKVEVYTTTIVSGATDSSDIRGATDFTSNTQDRISMSSVPMIEPS
HVVGLPKGQCFALLQGGQLWKVRMPLPAPDPDEVMPADLQQLAGYMRQSYSEATQWWEFTSSPALQETGL
PDDLLDDAAPAEPPAVATVSDDGAGNEASQ
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 2689317..2709471
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| XCV2355 | 2684884..2685381 | + | 498 | CAJ24032 | conserved hypothetical protein | - |
| XCV2356 | 2685446..2687278 | - | 1833 | CAJ24033 | conserved hypothetical protein | - |
| XCV2357 | 2687592..2688218 | + | 627 | CAJ24034 | conserved hypothetical protein | - |
| XCV2358 | 2688231..2688848 | + | 618 | CAJ24035 | conserved hypothetical protein | - |
| XCV2359 | 2688948..2689310 | + | 363 | CAJ24036 | putative membrane protein | - |
| XCV2360 | 2689317..2690840 | - | 1524 | CAJ24037 | putative membrane protein | tfc19 |
| XCV2361 | 2690855..2691226 | - | 372 | CAJ24038 | putative membrane protein | tfc18 |
| XCV2362 | 2691223..2692620 | - | 1398 | CAJ24039 | putative membrane protein | tfc22 |
| XCV2363 | 2692630..2693577 | - | 948 | CAJ24040 | putative secreted protein | tfc23 |
| XCV2364 | 2693574..2694020 | - | 447 | CAJ24041 | putative secreted protein | tfc24 |
| XCV2365 | 2694183..2694677 | - | 495 | CAJ24042 | RadC family DNA repair protein | - |
| XCV2366 | 2694859..2695644 | - | 786 | CAJ24043 | putative membrane protein | - |
| XCV2367 | 2695658..2698525 | - | 2868 | CAJ24044 | conserved hypothetical protein | virb4 |
| XCV2368 | 2698525..2698965 | - | 441 | CAJ24045 | putative secreted protein | tfc15 |
| XCV2369 | 2698946..2700376 | - | 1431 | CAJ24046 | putative secreted protein | tfc14 |
| XCV2370 | 2700366..2701280 | - | 915 | CAJ24047 | putative secreted protein | tfc13 |
| XCV2371 | 2701277..2701969 | - | 693 | CAJ24048 | putative secreted protein | tfc12 |
| XCV2372 | 2701966..2702364 | - | 399 | CAJ24049 | putative membrane protein | tfc11 |
| XCV2373 | 2702377..2702733 | - | 357 | CAJ24050 | putative membrane protein | tfc10 |
| XCV2374 | 2702751..2702984 | - | 234 | CAJ24051 | putative membrane protein | tfc9 |
| XCV2375 | 2702981..2703361 | - | 381 | CAJ24052 | putative secreted protein | tfc8 |
| XCV2376 | 2703460..2704209 | - | 750 | CAJ24053 | putative membrane protein | tfc7 |
| XCV2377 | 2704206..2706398 | - | 2193 | CAJ24054 | putative membrane protein | - |
| XCV2378 | 2706403..2706942 | - | 540 | CAJ24055 | putative secreted protein | tfc5 |
| XCV2379 | 2706939..2707529 | - | 591 | CAJ24056 | putative lytic transglycosylase precursor | virB1 |
| XCV2380 | 2707511..2708236 | - | 726 | CAJ24057 | putative secreted protein | tfc3 |
| XCV2381 | 2708249..2708818 | - | 570 | CAJ24058 | putative secreted protein | - |
| XCV2382 | 2708872..2709471 | - | 600 | CAJ24059 | putative secreted protein | tfc2 |
| XCV2383 | 2709660..2710748 | - | 1089 | CAJ24060 | hypothetical protein | - |
| XCV2384 | 2710765..2712960 | - | 2196 | CAJ24061 | putative cytochrome precursor | - |
| XCV2385 | 2713288..2713974 | - | 687 | CAJ24062 | hypothetical protein | - |
Host bacterium
| ID | 421 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEXcaVe85-1 | GenBank | AM039952 |
| Element size | 5178466 bp | Coordinate of oriT [Strand] | 101397..101714 [+] |
| Host bacterium | Xanthomonas campestris pv. vesicatoria | Coordinate of element | 2631723..2740954 |
Cargo genes
| Drug resistance gene | aph(6)-Id, aph(3'')-Ib |
| Virulence gene | - |
| Metal resistance gene | golS, golT |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |