Mobile element type:
Transposon
Name:
TnPa38
Synonyms:
Tn7172
Accession:
TnPa38-CP003149
Family:
Tn3
Group:
Tn21
First isolate:
Yes
Partial:
ND
Evidence of transposition:
ND
Host Organism:
Pseudomonas aeruginosa DK2
Date of Isolation:
2012
Country:
Denmark
| Name | Coordinates | Direction | Length | Sequence |
|---|---|---|---|---|
| IRL | 1-38 | + | 38 | GGGGTCGTCT CAGAAAACGG AAAATAAAGC ACGCTAAG |
| IRR | 6415-6455 | - | 41 | GGGGTCGTCT CAGAAAACGG AAAATAAAGC ACGCTAAGCC G |
ORF Summary
| Name | Associated TE | Coordinates | Orientation | Class | Subclass |
|---|---|---|---|---|---|
| tnpR | TnPa38 | 34-591 | - | Accessory Gene | Resolvase |
| WP_003100853.1 | TnPa38 | 585-956 | - | Passenger Gene | Hypothetical |
| WP_003100856.1 | TnPa38 | 953-1453 | - | Passenger Gene | Hypothetical |
| WP_003100858.1 | TnPa38 | 1450-1776 | - | Passenger Gene | Hypothetical |
| cupin domain-containing protein | TnPa38 | 2031-2405 | - | Passenger Gene | Other |
| WP_003100872.1 | TnPa38 | 2624-3010 | - | Passenger Gene | Hypothetical |
| nucleotydltransferase | TnPa38 | 3007-3297 | - | Passenger Gene | Other |
| tnpA | TnPa38 | 3456-6422 | + | Transposase |
ORF Details
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR | TnpR | TnPa38 | 185 | 34-591 | - |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Protein Sequence: | MLIGYARVST QDQNLELQRE ALSKAGCKKV FEDKVSGTRA DRPGLAKTLE MLREGDTLVV WKLDRLGRSV KQLVDLVGDL HKHGVQFRSL TDSIDTGTPS GRFFFHVMAS LAEMERELTV ERTRAGLEVA KQLGRKGGRK PKMTDSKIES AKKLLASGVP PKDVAKNLGV SIPTLYRWVP ASTHA |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | WP_003100853.1 | WP_003100853.1 | TnPa38 | 123 | 585-956 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Hypothetical | ||||||||||
| Protein Sequence: | MSTSTIEALA SAWARIAEEA EFPADYEGTA TPQAHRASEA IQEQIRERIV ATNDMRLFSL LHLLGQASLR MEQALWPEDY ERMTREVEEA LRQATDANAR SYTHEEVMQA MQERIDRARD KPC |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | WP_003100856.1 | WP_003100856.1 | TnPa38 | 166 | 953-1453 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Hypothetical | ||||||||||
| Protein Sequence: | MKLSFHQHIA LFWMIGAPGV FAPVIENAKR PDAGAVMAWG VAIVAVMILF TPLLLRCPPF RRWYGRTDAL SERQRQALAE RGLRRYYQTA FDDGYVPRVM PYVWRIIWTV GGLMAVTAVL PTNTGRPAFD ALVVFSTWYP IGVMLLVFAS RPLGRLIRQR AQERRK |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | WP_003100858.1 | WP_003100858.1 | TnPa38 | 108 | 1450-1776 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Hypothetical | ||||||||||
| Protein Sequence: | MSRSRRKTPI VGHTTCGSER EDKKLWHQRW RTRERTALTS ASPEALSAHL PLLENQASSV WSMGKDGRSY WPVKRQAATA DRIANHKGRN PQERASLKKR LLRKWMSK |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | cupin domain-containing protein | Cupin domain-containing protein | TnPa38 | 124 | 2031-2405 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Other | ||||||||||
| Comment: | cupin domain | ||||||||||
| Protein Sequence: | MKEGSPMTVE SRIFSVAEYV QPSEGEPIRS VVLETRDSII VVWHVHPGQE IAAHIHPHGQ DTWTVLSGMA DYFQGNGIVR ALREGEIAVA RPGQVHGARN TGTEPFVFVS VVASANAGFV LAER |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | WP_003100872.1 | WP_003100872.1 | TnPa38 | 128 | 2624-3010 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Hypothetical | ||||||||||
| Protein Sequence: | MSENRLPDYL DHIQQAATDA RSFVEGMAKD DFLADKRTQQ AVIMSLIVIG EAATKVMDGY VEFTQAHADV PWRSMRNMRN RMAHGYFDIN LDVVWETVQE WLPALLQQLP AVRQDADDED RNDKGMEP |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | nucleotydltransferase | Nucleotydltransferase | TnPa38 | 96 | 3007-3297 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Other | ||||||||||
| Protein Sequence: | MRPSVVLDMK RSAVREAVGR FRAANPRVFG SVLHGTDRDG SDLDLLVDAL PGATLLDLGD LEEELKSLLG VDVDLLTPGD LPPKFRAKVL AEAQPI |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA | TnpA | TnPa38 | 988 | 3456-6422 | + |
|---|
| Class: | Transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Protein Sequence: | MPRRSILSAA ERESLLALPD TKDELIRHYT FSESDLSIIR QRRGPANRLG FAVQLCYLRF PGVILGADEP PFPPLLRLVA NQLKVGIESW DEYGQREQTR REHLVELQTV FGFQPFTIGH YRQAVQLLTE LAMQTDKGIV LARALIEHLR RQSVIVPALN AVERASAEAI TRANRRLYDA LAEPLTDVHR RRLDDLLKRR DNGKTTWLAW LRQSPVKPNS RHMLEHIERL KAWQALDLPS GIERLVHQNR LLKIAREGGQ MTPADLAKFE PQRRYATLVA LAIEGMATVT DEIIDLHDRI LGKLFNAAKN KHQQQFQASG KAINAKVRLF GRIGQALIEA KQAGRDPFAA IEAVMSWDAF AESVTEAQRL AQPEDFDFLH RIGESYATLR RYAPEFLDVL KLRAAPAAKD VLDAIEVLRS MNSDNARKVP TDAPTEFIKP RWQKLVMTDT GIDRRYYELC ALSELKNALR SGDIWVQGSR QFKDFEDYLV PPAKFASLKQ ASELPLAVAT DCDQYLHDRL TLLETQLPTV NRMALANELP DAIITESGLK ITPLDAAVPD TAQALIDQTA MILPHVKITE LLLEVDEWTG FTRHFAHLKS GDLAKDKNLL LTTILADAIN LGLTKMAESC PGTTYAKLAW LQAWHIRDET YGAALAELVN AQFRHPFAEH WGDGTTSSSD GQNFRTGSKA ESTGHINPKY GSSPGRTFYT HISDQYAPFH TKVVNVGVRD STYVLDGLLY HESDLRIEEH YTDTAGFTDH VFALMHLLGF RFAPRIRDLG DTKLYIPKGD ATYEALKPMI GGTLNIKHVR AHWDEILRMA TSIKQGTATA SLMLRKLGSY PRQNGLAVAL RELGRIERTL FILDWLQSVE LRRRVHAGLN KGEARNALAR AVFFNRLGEI RDRSFEQQRY RASGLNLVTA AIVLWNTVYL ERAANALRGH GQAVDDGLLQ YLSPLGWEHI NLTGDYLWRS SAKIGAGKFR PLRPLQPA |
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1. Rau MH, Marvig RL, Ehrlich GD, Molin S, Jelsbak L.
Deletion and acquisition of genomic content during early stage adaptation of Pseudomonas aeruginosa to a human host environment.. Environ Microbiol. 2012 Aug;14(8):2200-11. doi: 10.1111/j.1462-2920.2012.02795.x. Epub 2012 Jun 5. PubMed ID:
22672046
.
2. Yang L, Jelsbak L, Marvig RL, Damkiaer S, Workman CT, Rau MH, Hansen SK, Folkesson A, Johansen HK, Ciofu O, Hoiby N, Sommer MO, Molin S. Evolutionary dynamics of bacteria in a human host environment.. Proc Natl Acad Sci U S A. 2011 May 3;108(18):7481-6. doi: 10.1073/pnas.1018249108. Epub 2011 Apr 25. PubMed ID: 21518885 .
2. Yang L, Jelsbak L, Marvig RL, Damkiaer S, Workman CT, Rau MH, Hansen SK, Folkesson A, Johansen HK, Ciofu O, Hoiby N, Sommer MO, Molin S. Evolutionary dynamics of bacteria in a human host environment.. Proc Natl Acad Sci U S A. 2011 May 3;108(18):7481-6. doi: 10.1073/pnas.1018249108. Epub 2011 Apr 25. PubMed ID: 21518885 .