Mobile element type:
Transposon
Name:
TnXc4.1
Synonyms:
Tn7211
Accession:
TnXc4.1-CP011958.1
Family:
Tn3
Group:
Tn3
First isolate:
Yes
Partial:
ND
Evidence of transposition:
ND
Host Organism:
Xanthomonas oryzae pv. oryzicola strain CFBP7331
Date of Isolation:
2015
Country:
Mali
Molecular Source:
chromosome
| Name | Associated TE | Coordinates | Orientation | Length | Sequence |
|---|---|---|---|---|---|
| res | TnXc4.1 | 972-1107 | + | 136 | ATTCCGTTTT ACTCGTTGAT TAAGACAATA TCAAACTTTG ATTATGCAAA CCACTTTTAT AGACTGCTTG TTGGCCTGCG GGCATGTCAT GCCCGTTGCT TCGTTGTAGT TCAGATAAAC GATCGTTTTA TCGAAC |
| res_site_III | TnXc4.1 | 972-1000 | + | 29 | ATTCCGTTTT ACTCGTTGAT TAAGACAAT |
| res_site_II | TnXc4.1 | 1004-1036 | + | 33 | AAACTTTGAT TATGCAAACC ACTTTTATAG ACT |
| res_site_I | TnXc4.1 | 1079-1111 | + | 33 | AGTTCAGATA AACGATCGTT TTATCGAACC ATT |
ORF Summary
| Name | Associated TE | Coordinates | Orientation | Class | Subclass |
|---|---|---|---|---|---|
| tnpR | TnXc4.1 | 42-965 | - | Accessory Gene | Resolvase |
| RHH_6 | TnXc4.1 | 1174-1413 | + | Passenger Gene | Antitoxin |
| PIN_3 | TnXc4.1 | 1413-1832 | + | Passenger Gene | Toxin |
| tnpA | TnXc4.1 | 1837-4812 | + | Transposase | |
| secA | TnXc4.1 | 4831-5529 | + | Passenger Gene | Plant Pathogenicity |
ORF Details
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR | TnpR | TnXc4.1 | 307 | 42-965 | - |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Protein Sequence: | MKIGYARVST REQNPALQVD ALKAAGCERI YHDVASGAKT ARPALDELLG QLRAGDVLVI WKLDRMGRSL KHLVELVGNL MERKVGLLSL NDPIDTTSAQ GRFVFNLFAT LAEFERELIR ERTQAGLTAA RARGRVGGRP TGLSPQAEAT ALAAETLYRE RKLSVAAIAQ KLHLSKSTLY SYLRHRGVEI GPYKKTEQQP SSMSALESGN DAPPKVATIL LTLRIENNSK FVRGKKRTIE HVESFYLDQY DATRRPNGEY ELKVPYDTDE ELDEAVNELL TDIASGADDR HCFSESDARM EGTDRHW |
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| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | RHH_6 | RHH_6 | TnXc4.1 | 79 | 1174-1413 | + |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Antitoxin | ||||||||||
| Sequence Family: | RHH_6 (Pfam:PF16762) | ||||||||||
| Protein Sequence: | MNTVRWNIAV SPDVDQSVRM FIAAQGGGRK GDLSRFIEEA VRAYLFERAV EQAKAATAGM GEAELNDLID EAVQWAREH |
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| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | PIN_3 | PIN_3 | TnXc4.1 | 139 | 1413-1832 | + |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Toxin | ||||||||||
| Sequence Family: | PIN_3 (Pfam:PF13470) | ||||||||||
| Target: | single stranded RNA | ||||||||||
| Comment: | tRNA(fMet)-specific endonuclease | ||||||||||
| Protein Sequence: | MRVVLDTNVL LAALISSHSP PDIIYRAWLA GRFDLVTGAE QLDELRRVSR YPKIRAILPA HRIGTMINNI QRAVVLNTLP PLPNGIDAND PNDAFLLAMS LAGEADYLVT GDRRAGLLQR GSIGRTRIVT PATFCAEAL |
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| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA | TnpA | TnXc4.1 | 991 | 1837-4812 | + |
|---|
| Class: | Transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Protein Sequence: | MPVSFLSTTQ RERYGRYPEA LSSEELGRYF HLDDDDRELI ATKRRDSSRL GYALQLTTAR FLGTFLEDPT AVPSPVLHTL SSQLGIADPS DCVIDYRTTR QRWQHTTEIR ARYGYREFAE RGVQFRLGRW LCALCWTGTD RPSALFDYAN GWLVGHKVLL PGVTVLERFI ADIRSRMESR LWRLLVRGVT VAQRQRLEDL LKPAEGSRQS WLDRLRKGPV RVSAPALVMA LLRIETVRDL GIKLPGTHVP PSRIAALARF ASTVKVSAVA RLPEARRIAT LVAFVHCLEA SAQDDALDVL DLLLRELFTK AEKEDRKFRQ RSLKDLDRAA STLAEACRML LDPGLPDGEL RERVYAAIGR DELAQALNEV RGLVRPPNDV FYTELEARKA TVSRFLPTLL RVIRFDANPA AQPLAQALKW LHEKPDHDPP TAIVGKAWQR HVVQEDGRIN ATAYSFCALD KLRSAIRRRD MFISPSWRYA DPRAGLLAGA EWEAARPIVC RSLSLTAQPE ATLATLTREL DKTYRRVAAR LPENDAVRFE TVGDKTELVL SPLEALEEPT SLIALRNEIK ARMPRVDLPE ILLEVAARTG CMDAFTHLTE RTARAADLTT SLCAVLMAEA CNTGPEPLVR QDTPALKRDR LMWVDQNYVR DDTLVACNAV LVAAQNRIAL ARTWGGGDVA SADGMRFVVP VRTIHAAPNP KYFNRGRGVT WYNLLSDQCT GLNTITVPGT LRDSLVLLAV VLEQQTELQP TQIMTDTGAY SDLVFGLFRL SNYRFCPRLA DVGGTRFWRV DPDADYGELN ALARQRVNLD RITPHWDDVL RLVGSLKLGL VPAMSIMRTL QVDERPTSLA QAIAEIGRID KTIHTLNFID DEARRRATLL QLNLGEGRHS LAREVFHGKR GELFQRYREG QEDQLSALGL VVNMIVLWNT LYMDAVLAQL RSEGYPIRPE DEARLSAFVH EHINMLGRYS FSVPEAVARG ELRPLTKQNE P |
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| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | secA | SecA | TnXc4.1 | 232 | 4831-5529 | + |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Plant Pathogenicity | ||||||||||
| Comment: | contains 2target sites for ISXac1 insertions | ||||||||||
| Protein Sequence: | MQQMTQQSLN DAELDRLGDF LEGVGAPAMN LEMLDGFFAA LICGPETVLP SEYLPQVLGE GHCFDSNDQA AEILGLVMRH WNTIASELFR TLEKDDVYLP VLLEDADGAV HGNDWARGFM RGIQLRPNSW QELIGSDEFG GPMLPIMILT YEHDPDPAMR PPEIAPDKRD ELLQSLIAGL THIYRYFASH RQLATHVPLR RQGPKVGRND QCPCGSGRKY KHCCATGGPI FH |
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