ISPsy42

  • Family Tn3
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s) TnPsy42
Accession numberTranspositionOriginHost
CP012179 Y Pseudomonas syringae
Pseudomonas syringae pv. actinidiae
Xanthomonas arboricola pv. pruni str. CFBP 5530 plasmid pXap41 (FR875157)
DNA section
IS Length : 5667 bp

Ends


IR Length : 39

IRL : GGGGTTGTAAGCCGGAACCGCCGAAATTTCCGTCATCCCAGCTCCAGTTC
IRR : GGGGTTGTAAGCCGGAACCGCCGAAATTTCCGCCACCCGTCCCGAGCGAT

Insertion site


Left flankDirect repeatRight flankDR Length

DNA sequence

GGGGTTGTAAGCCGGAACCGCCGAAATTTCCGTCATCCCAGCTCCAGTTCGGCCACGAGCGCGTCTAGGTCGAGCATCTTGCCGTCGCTCTGGAAGGTGT
AATGCCCGTTCAGCAGGATGTGCCGCCAGGCTGCCGGTGACATCTGGGTGATGAGCGCCAGCGCGTTGGCGTTGCCGCTCGCCTCATACTTCGTCAGCAG
CCGCGACAGGATGGCCGAGTTGTAGTAAATGACCGCGTTGGCGATCAGGCGCGCACACTGGTTGCTGATTTCGATCTCGATGTCGGTGCGTCCGGTCAGT
TCCTTCTTGCCACCGACCTGGGCAACGGTTGAGCGTAGCTGGTGGTAAGACTCGATGCGGTTCTGGGAGCGGTGCACGTTGCGCTCCAGTTGAGGGTCGC
GCAGGTAGCGCAGCGTGTAGATGCTGCGGACGAGCTTGTCGAACTCGAATATCGCGCGCCGCGTCGGGTTTTGCGCGGTATAGGTGCACAGCTTGCGGAT
CAGCGTGCCCTGCGTCATCTCCTTCAGCCCGAGCGTGGCGACGATCCGGTCGATGTTTGGCTTTTCGTCGATGATGAGATCGCGGTCGATTTTCCCGATC
GGTCGGATCAGGCAGTTCTCGTATTGTGCAAGATCGTCGGCGCAGTACAGTTCCTTCAACTGGTCGTCGAGGTTGGCGAAGCGTGGCTCGAAGCGCGGAC
CGAACCAGTGCAGGATGGCGAAGTTGGCCTTGTTGACGCTATGCATGTCGCCGGTGATCGCGGTTGGTACGATATCCGACGTGTTGCGATACCAGATGTC
GAATACGTGATGGGCCTCGTAGTCGTGCGCGCCGATCAGGTAGCCGTTGAGCGGCACGTGGTTGCACAGCAGCGTGTAGGCGACCACGCCTTTCCCGCGC
CCGAAGTATTTACGCGAGTAGCGCGCTTTCACTGTCGGCCGCTCGACGCCGAATTTCTGGCCATCGACAGCACCGTACAGCGTATTGAGATCGAACGAGT
AATACGGAAAAATCGGTAATTGCGCGATGGCGTTGCTGATGCAGTCGTTGGCCGCGTGCAGCGTTGCGTGGCGCAGGTACTGTTGGTAGGCGCTCTCCAG
CACGTGGTACGGGATGTCGCTGGTACGCGCCATGACCTGGTTACCGTGGTTCATCGCCTGCGCGATGATGACCGCCATCAGGCTGTCGGCGTCGGCGACC
TTCTTCGCATAGCGCGGCTGCAAGGGCGTCAGCGCCGACAGGAACTGGCACTGGCCGTCGACGAAGCGGAAAACGTCGGCCACGTCGCAGAACGGCAGTT
GTTCGTAGAACGCTTTCTCGCGGGCCTTCTGGTTTTCGCCCTTGGGTTTGCGCCAGATCAGTTTATGCGTGGCTTTGTCGTATTCCAGGTGCGTCAGCTT
GCCTTGTTTAAGCTCGCGGTTGAGGGCCAGCCACTGCAAGTGAAGTTCGGCCGCCAGCGCATCAAGTTGGGCATCGACCGGCTGCCGCAGGAAGGGGATG
TCCATCTTCGCAAGCGCGTCGGCCTTTTCCTCCACCGAAACCAGCTCGTCGGAGAAATGACGGTGTTGCAAACTGTCGTCGAGGTAGAGTTCGCCCGACT
GGAAGCGTTTCCTGACCTGGCGGTACAGCCAGAATTCGTAGCGATCAGCGTGCAGGCCCGTTGACTTGCCGTCGGCATCGAAGGTCAGCAGGTACGGCCG
CAAGCGTTTCGGTAGCGTGGCCGCTGGACATTCAGCGAGCGGCCGTTGCGATAGGCGCTGCTGTTTGGCGAACACGCCCTTGGCCCAGGCCAGCGCCACC
AGCCACGGGCTGTCCGGGTTGGTTGCGGCGAGGTCGAGCGCGACGTACAGCGGTCGAAGATGCCGACGGATACGCTCGGCCAGGCCGTCCACCGCCTGCC
AGTGCAAAGCCAGTTTGCTCACCGGCTTGGCGCTCATGCGCTGTGCCGTGGTTAGCAGCGCATCGCGAGGCATGATCTTGTAGGCGCGCTGGCGCACATC
GCCGAACGGCGTGGGATCGGGCACGCTGTCGTCGATGTAAAGCGACAGCAGGCGGCCGACCTGCGGCGTGTCTTGCTGACGGCGCACCTGCTCGGCAACG
AAGGACTGCTTTGCGCCCGCACTGCTCTGGTCCTCCAACTGCTTCATGTGGTAGGCCATCGCATCGACCAGGTTGTCGGAGAGCTGTCGGTAGCGCACCC
AAGCATAGCACAGCAGATAGAGGTGGCTCTGATCGGCCTTCAGATTGCGAAGGTCGTGGACGGTGTAGAAGTTCGCCAGGCTCGCGTAGTACAGCAGGTT
TTGCTGCGAGACGCCGAGCTTGGGCAGCAGCGCTTTGGCAATGCTATGCAGCGGTTCCAGCGTGGCGCGTTTTTCCCGTTCGCGGGCCATCTGACGCCAG
CCGAAATCCTTGGCGTCCTGCTTGAGCGCCGCCAGTTGCGACAGGGTGTCATCGCGCACCAGGAGCTGGGCCATCGCGGCCCTGGCCGGATCGTCCAATA
CTTCCGCGAGCAGCCCGCCCAGCCGCCGGCGTTCGGCGGACAGGGCTTCGCTGACCAGCTCTTGCAAGGTGGTGTAGCCTGGCCGAATGATCTTGTGCTC
GTTGAGCCAGACGATCAGCTCGGTGGCGATGAACCCCGGAATTACATCGCGGCGCACGATCAGCGCGGCCTGCTGCGCGAGCTGTGGCAGGAAGCTGGCT
ACCCACGGAAGATAGCAAAACAGCTCGGCGATCCGTTCGCGTTGGGTGTAGTGCTCGTGCTTGGTGACCGCCTTGCACTCGAACGGCTCGTCAGTGAAAT
AGCGTCTCAGCACGAAGGCGCAATCGTCCTCGACCTCGTTCCAGTCGAAGCGGAAGAACGCGTGCTTGGCCTTGAAGTAGCCGATCTGCAAGACGCAATA
GACTTGGGCAGGCATGCCGGGCCGGCTGCTGGCGAGCGCCAGTTCAGCATCGGTCAAGGCCAGATATTCCAGCCGCTGGGTGTCGTCGAAATCCGGCAGG
CCGTACAAGGCTTCCTGCTCGGCGTCCGACAGAATGGTCAATCGTTCGCTCTTGGCCGCCATTACAGTGCCGCTGCGCGTGAGGCGGTTGTCATTTTTGG
AGATCTCGTGCGCTGGTGGATTGCAGAGCTGCATACAAGGCTGTTTTACTCACCTTGAGCCGTGTAGCGGCCTCCCGGACATTTAGCCCGTTGGCGATGT
GTTTACGTGCCTGCTGCAACTTGTCGGCGGTGATGACTGGTTTGCGTCCGCCCTTGCGCCCGCGAGCGGCGGCGGCACTCAACCCGGCCTTGGTGCGCTC
GCGAATCAGGTCGCGCTCGAACTGGCCCAGCGCGCCGAACACGTGGAAGATGAGCCGCCCGCCCGGCGTGGTGGTGTCGATGGCTTCCGTCAGCGAACGA
AAGCCGACGCCTCGCGCTTCCAGCGCGCCTATCGTTTCGATCAGGTGCGGCATGGAGCGCCCAAGCCGGTCCAGCCGCCAGACGGCCAGCACGTCGCCGT
TGCGCAGGTAGGCCAGCGCATCAGCCAAACCGGGGCGGTCAGCCTTGGCCCCGGAAGCCGTGTCCTCGAAAACGCGCTCGCAGCCTGCTTTGCGCAGCGC
ATCCGTCTGCAAAGCGGTGTCCTGTTCCGCCGTTGATACCCGCGCATAGCCGATCAGTGCCATTTGCCACCCATCTTGTCCGCTATTCCGTCCGTCTATT
TTATTGTCCGAAAACCCGTTGCACAAGCAGTTTTCAGGACAGCGCCCGGCACGGCCGACTAACGATCGTTTGACGGACAGCACAAGTAAGGCTTTTTTGC
ATTACTATTGCGTCAACCCATGAGATTGCGAGGCACATCACCATGACCACATTGACCGTTACCGCACGTGGACAAGTGACGTTTCGGAAGGACGTACTGC
AACACCTCGGCATTAGGCCAGGCGACAAGATCGAGCTTGACTTGCTGCCAGATGGTCGGGGAGTACTCAAGGCGGCACGGCCCGCAGGGACGATAGCCAG
CTTTGTCGGCCTGCTCGCGGGTAAGACGCAGAAGGTTGCCACCATCGAAGAAATCAACGAGGCGGCTGCACAAGGATGGGCAGGCAAGCAATGAAGGTCG
CAGTCGATACCAACGTCCTTGTGCGTGCTGTTGTGCGTGACGATCCCGCACAAGCGGACGTTGCCGCCGCAGTCTTGACCGATGCTGAGTTGATCGCGGT
CGCGCTGCCGTGCCTATGCGAATTTGTTTGGGTGCTGATGCGCGTCTATGGCTTCCAGCAATCTGACGCGGCCGACGCGATCCGGGCGCTACTGGATGCC
GCCAACGTGGAAGTGAACCGGCCCGCCGTGGAGGCCGGTTTGCTGGTGCTCGACGCAGGCGGTGACTTTGCCGATGGCGTCATTGCCTACGAAGGTAATT
GGCTTGGTGGGGAAACCTTCGTTTCCTTCGATAAGAAGGCGGTGACACTTCTCTCTGTCCAAGGGCAATCAGCGCGTCTTTTGTGACGGACATGAGAATG
AACGAATTTCGCCGACTGGCCACGAAGATCGACCAGCATATGAAACAGCTTGCCACCCAAGGTGTCAGTGAGGCCCATTCCATCATCAATCACATGATGG
GGTACGTGCCTGACAACCGTGCAGCTGGGCCAGGTAGAGGGTCGGCTCACACGATCTTGCAAGGGATAGAAGCGTCCTCGTCGAAGCTATAGACGGCGCA
CAAACGGTGGTAGCCGTCGGCAACTACGGTGCGCTGGCCTTCCTGGCGCACCAGCAGCAGCGGTGACAGAGCGGTGCCGGACTGGATTTTTTTGAGGTCC
CTTTCCACGTGTGCATTGCTCATTCCTAGCGGCGAGAGGCCGCTGGCGCGCAGGATGTCCTTGGCCTTGAAGGCCGACATGGGTGCCGCGTGCAGCTTAC
GCACCAGCTTGGCGCAGTGGGCGTCGTCATACAGCAGATTGAGATAGGACTGCGCAGCCGGATAATCATGTTCCTCCGGTTGAGCCAGCCAGGCGATTGT
GTTCTTGTCGGTCTTGTCACCCATTAAAGTGCTCCCTCGTTGGTAGGTAGTGAACCACTGCTTCTTGATACGCCCAGAGTTCCTTAGACACTCAAGACCC
TCGTTGCGCGTAGCGCCGTTCAAACTCTACAGGGGACAGGTCACCAGTTGAACCGTGGCGGCGGTTGGGGTTGTAGAACATCTCGATGTAGTCGAATACC
TCGGCGCGTGCGGCGTCCTTGGTGGGATAGATCTGTCGCCTGATCCGCTCGCGTTTGAGCAGGCCGAAGAAGCCTTCACAGGCCGCGTTGTCCCCGCAAT
GTCCCACTGCACTCATCGAGCACACTAGAGGGTCGTGACAAAATTCCGGCGTACTGCCCCATCCCGTCCCATATGACGGCTTGGCCGAGTTCTCCGAAGA
GCACAAGCCACGGGTAGCTCAACTGCTGGTTACAGCGGCAACCTGCAAGTCTTCCAGCCACACGACAACGAGCTGGGCAGCCTGCACCGCCAATGGCTAT
CCGATCTGGACAGCTTAAAGACTTTTTACGCGCGACGGGCACTGACCCCAAAGCGTTGGAGTATGTGAACGAAACGTTCGCACGCCTTGCCGGACGTATC
AAGCAACTTGCCGAGTGATCGCTCGGGACGGGTGGCGGAAATTTCGGCGGTTCCGGCTTACAACCCC
Protein section
ORF number : 6

 

ORF 4
LengthBeginEndStrandFusion ORF
252 bp83 aa18251574-No
ORF function : Passenger Gene
Annotation : Description : Transcriptional Regulator factor

ORF sequence :

MTTLTVTARGQVTFRKDVLQHLGIRPGDKIELDLLPDGRGVLKAARPAGTIASFVGLLAGKTQKVATIEEINEAAAQGWAGKQ

 

Blast result :
ORF 1
LengthBeginEndStrandFusion ORF
225 bp74 aa352576+No
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MSAVGHCGDNAACEGFFGLLKRERIRRQIYPTKDAARAEVFDYIEMFYNPNRRHGSTGDLSPVEFERRYAQRGS

 

Blast result :Comments : IS3 family, 3' end
ORF 2
LengthBeginEndStrandFusion ORF
378 bp125 aa6441021+No
ORF function : Passenger Gene
Annotation : Hypothetical proteinDescription :

ORF sequence :

MGDKTDKNTIAWLAQPEEHDYPAAQSYLNLLYDDAHCAKLVRKLHAAPMSAFKAKDILRASGLSPLGMSNAHVERDLKKIQSGTALSPLLLVRQEGQRTV
VADGYHRLCAVYSFDEDASIPCKIV

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
396 bp131 aa15771182-No
ORF function : Passenger Gene
Annotation : DNA-binding proteinDescription :

ORF sequence :

MTTLTVTARGQVTFRKDVLQHLGIRPGDKIELDLLPDGRGVLKAARPAGTIASFVGLLAGKTQKVATIEEINEAAAQGWAGKQ

 

Blast result :Comments : DNA binding, PinSF (PIN domain of ribonuclease, toxins) nearly always expressed with antitoxin
ORF 5
LengthBeginEndStrandFusion ORF
573 bp190 aa20052577+No
ORF function : Accessory Gene
AG : Tn3 resolvase

ORF sequence :

MALIGYARVSTAEQDTALQTDALRKAGCERVFEDTASGAKADRPGLADALAYLRNGDVLAVWRLDRLGRSMPHLIETIGALEARGVGFRSLTEAIDTTTP
GGRLIFHVFGALGQFERDLIRERTKAGLSAAAARGRKGGRKPVITADKLQQARKHIANGLNVREAATRLKVSKTALYAALQSTSARDLQK

 

Blast result :
ORF 6
LengthBeginEndStrandFusion ORF
3030 bp1009 aa26065635+No
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MAAKSERLTILSDAEQEALYGLPDFDDTQRLEYLALTDAELALASSRPGMPAQVYCVLQIGYFKAKHAFFRFDWNEVEDDCAFVLRRYFTDEPFECKAVT
KHEHYTQRERIAELFCYLPWVASFLPQLAQQAALIVRRDVIPGFIATELIVWLNEHKIIRPGYTTLQELVSEALSAERRRLGGLLAEVLDDPARAAMAQL
LVRDDTLSQLAALKQDAKDFGWRQMAREREKRATLEPLHSIAKALLPKLGVSQQNLLYYASLANFYTVHDLRNLKADQSHLYLLCYAWVRYRQLSDNLVD
AMAYHMKQLEDQSSAGAKQSFVAEQVRRQQDTPQVGRLLSLYIDDSVPDPTPFGDVRQRAYKIMPRDALLTTAQRMSAKPVSKLALHWQAVDGLAERIRR
HLRPLYVALDLAATNPDSPWLVALAWAKGVFAKQQRLSQRPLAECPAATLPKRLRPYLLTFDADGKSTGLHADRYEFWLYRQVRKRFQSGELYLDDSLQH
RHFSDELVSVEEKADALAKMDIPFLRQPVDAQLDALAAELHLQWLALNRELKQGKLTHLEYDKATHKLIWRKPKGENQKAREKAFYEQLPFCDVADVFRF
VDGQCQFLSALTPLQPRYAKKVADADSLMAVIIAQAMNHGNQVMARTSDIPYHVLESAYQQYLRHATLHAANDCISNAIAQLPIFPYYSFDLNTLYGAVD
GQKFGVERPTVKARYSRKYFGRGKGVVAYTLLCNHVPLNGYLIGAHDYEAHHVFDIWYRNTSDIVPTAITGDMHSVNKANFAILHWFGPRFEPRFANLDD
QLKELYCADDLAQYENCLIRPIGKIDRDLIIDEKPNIDRIVATLGLKEMTQGTLIRKLCTYTAQNPTRRAIFEFDKLVRSIYTLRYLRDPQLERNVHRSQ
NRIESYHQLRSTVAQVGGKKELTGRTDIEIEISNQCARLIANAVIYYNSAILSRLLTKYEASGNANALALITQMSPAAWRHILLNGHYTFQSDGKMLDLD
ALVAELELG

 

Blast result :
Comments
The transposase of ISPsy42 (orf6) is 91% aa similar to the transposase of ISPsy30, and the resolvase is 70% aa similar to the resolvase of ISPa38.
References
1] Butler M.I. (2017) Direct submission to ISfinder
2] Butler MI, Stockwell PA, Black MA, Day RC, Lamont IL, Poulter RTM. (2013) PLoS ONE. 2013; 8(2): e57464. doi: 10.1371/journal.pone.0057464 PMID: 23555547