ISLse2

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
ND Listeria seeligeri
Listeria seeligeri
Listeria seeligeri pLIS4
Listeria seeligeri pLIS5
Listeria ivanovii subsp. londoniensis WSLC 30151
DNA section
IS Length : 1247 bp

Ends


IR Length : 22/30

IRL : TGGGTGTAGAATTAAAATTGGACAAAAGATGATAGAATAAAACCTATCGA
IRR : TGATGTGATGTCAATAACTTGGACAAAAATAAATAGAACTTAATTCGCTT

Comments : Ends defined by alignment of multiple copies of ISLse1 and available empty insertion sites

Insertion site


Left flankDirect repeatRight flankDR Length
atattccatttttggaagaaGTTaatgctatcgaatttaatgg3
atgtccaattacaaaaaaaaCGAtgaagatttcaaaaaaagct3
tatgatttttactaaacaaaaagtgtgcagaaaatcatgt0

DNA sequence

TGGGTGTAGAATTAAAATTGGACAAAAGATGATAGAATAAAACCTATCGAAAACATCGGAGGAATTTGTTCAATGAGAAAGCTAGGGAAATGGGACACCA
CATTTAAAGAAACAATTGTAGAACTGTATATAGCTGGCACTTCCGTGCAAACTTTATCAGAAGATTATGGCATTGCAAAAGCAACCATCTATACATGGAT
TAAAAATAAGCAAACAAAAGAAGAAAAACAGAATCGTCCAGAGTTGGCGACAGAGCATGTGGAGATGCAAAAAGAAATCCAGCGATTGAAAGAGGAAAAT
GAGATTTTAAAAAAGTGTATCAGCATCTTCACGGAGAAAAAGAAAAACTAAGGGTTTCAGAAAAAGTGGCTTGGATTGAAAAACACCGAGAGATGCACGC
ACTAGGAACCATGTTACAAATGATTGAATTAGCGAAATCTACGTACTACGAATACAAAAGGAGAGCAATAAGCCAAAGAGAGCGGGCACGAAAAGTAAGG
GAGAAACGTGTCCAAGCGTTATTTTATGAAAATAAGCAGATTTATGGAGCTCGAAAGTTACAGTTTTTGTTACAAAAAGAAGGAATCCTGGTGACGGTTC
GAACGATTTCAGCAGATATGAAAAGACTACAACTACGTTGTTGTTATATTAAAAAATGGCAATCTAAGAAGGCTACGAAGCAAGAAGAACTCCTGACAAA
TGAAATAAAAACAAATCAACCGACAACCGCAGGAACGCATGTATTAACGGATATGACCTATGTATGGACGCAAAAAGATAAATGGGTGTATGTCATTACA
TTTTTAGACGCCTTTACCCGAAAGGTCCTTCATTTTGGTGTTGGAAAACAAATGGATAGCACCTTTGTAGATGGTCATACAAAGGCAGTTTTAGAAAAAT
ATCCCAGTATCACTTTACTGCATTCTGATCGTGGCAGCCAATATACCGCGGGTAGCTATCGCGATTTACTAAATGAAAATAACGTGATAGTTTCTTATAG
TAAGGCAGGTTATCCTTATGATAATGCAAAAATCGAATCTTACCACGCCAGTATTAAACGAGAACAATTATACCGGCTTGATTTTCAGCACATCAACGAT
GTGTATCAAGCTGTATTTAGCTATAATTATGGCTTTTATAATACAAAGCGTATTCATCAATCTTTAGGCTACTTAACACCAAATGATTTTGAAAGAAAAG
CGAATTAAGTTCTATTTATTTTTGTCCAAGTTATTGACATCACATCA
Recoding section
  • Recoding by frameshift
  • Frame -1
  • Type translational
  • Experimentally demonstrated No

Stimulators :

  • Shine-Dalgarno sequence :
  • Secondary structure :

Recoding motif :

Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
282 bp92 aa73354+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MRKLGKWDTTFKETIVELYIAGTSVQTLSEDYGIAKATIYTWIKNKQTKEEKQNRPELATEHVEMQKEIQRLKEENEILKKCISIFTEKKKN

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
909 bp301 aa3031211+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

DFKKVYQHLHGEKEKLRVSEKVAWIEKHREMHALGTMLQMIELAKSTYYEYKRRAISQRERARKVREKRVQALFYENKQIYGARKLQFLLQKEGILVTVR
TISADMKRLQLRCCYIKKWQSKKATKQEELLTNEIKTNQPTTAGTHVLTDMTYVWTQKDKWVYVITFLDAFTRKVLHFGVGKQMDSTFVDGHTKAVLEKY
PSITLLHSDRGSQYTAGSYRDLLNENNVIVSYSKAGYPYDNAKIESYHASIKREQLYRLDFQHINDVYQAVFSYNYGFYNTKRIHQSLGYLTPNDFERKA
N

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1139 bp378 aa731211+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MRKLGKWDTTFKETIVELYIAGTSVQTLSEDYGIAKATIYTWIKNKQTKEEKQNRPELATEHVEMQKEIQRLKEENEILKKVYQHLHGEKEKLRVSEKVA
WIEKHREMHALGTMLQMIELAKSTYYEYKRRAISQRERARKVREKRVQALFYENKQIYGARKLQFLLQKEGILVTVRTISADMKRLQLRCCYIKKWQSKK
ATKQEELLTNEIKTNQPTTAGTHVLTDMTYVWTQKDKWVYVITFLDAFTRKVLHFGVGKQMDSTFVDGHTKAVLEKYPSITLLHSDRGSQYTAGSYRDLL
NENNVIVSYSKAGYPYDNAKIESYHASIKREQLYRLDFQHINDVYQAVFSYNYGFYNTKRIHQSLGYLTPNDFERKAN

 

Blast result :Comments : The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
Comments
ISLse2 is 59% (transposase) aa similar to IS981.
ISLse2 was identified by in silico nucleotide sequence analysis of Listeria seeligeri plasmids. In plasmid pLIS4 two ISLse2 copies form a 27 kbp long composite transposon harboring a functional cadAC efflux pump conferring resistance to cadmium.
Nucleotide sequences of plasmids pLIS4 and pLIS5 will soon be available in GenBank database.
References
1] Chmielowska C., Korsak D., Szuplewska M., Bartosik D. (2020) Direct submission.