ISLse1

  • Family IS3
  • Group IS150
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
MJUD01000007.1 ND Listeria seeligeri
Listeria seeligeri
Listeria seeligeri pLIS4
Listeria seeligeri BCW_4759
Listeria ivanovii subsp. londoniensis strain NCTC12701
DNA section
IS Length : 1506 bp

Ends


IR Length : 25/28

IRL : TGTAGTGCGCCCCCAAAGTTAGACCAAAAAATCTAACTTTGGAGGCGTAT
IRR : TGTAGTGAGACCCAAAAGTTAGACCAAATGCCGACCAGAGAAATCTGGTT

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

Insertion site


Left flankDirect repeatRight flankDR Length
gtgcaaaaaaaactaccggaTGAggtaatgccattttttgttt3
aaactactaaaacctaaccgTTTtagtagttttttattgtttt3
aaacgagctaggaatttgatCCTagctcgtttttttaatggat3
gctctattctccaaattaggGGAtagagcttttttgataatta3
agcgccaaagttaatttaatTAActttggtgcttttttattct3
gactataccactcaatgattTTAaatcaaagaatgatctagtc3
aagcagatactgttattaaaATCatactaactattctcataag3
gggctgataaatgtgcgaatATTcgactgcgtttcttttttaa3

DNA sequence

TGTAGTGCGCCCCCAAAGTTAGACCAAAAAATCTAACTTTGGAGGCGTATTTTAATTGGCTAAATATGATGATGGATTCAAGAGAAAAGTAGTGGAAGCT
TACCAAAACGGCGAAGGTGGTTATCGCACACTCGCTCAGCGCTTTGGTATATCACATTTTTCTCTGGTTAGAAAATGGGTGAAGATTGTAGAGGCAAGGG
GGTTTGAAGCATTACAAAGGCGAAGAACCAAACAACATTATACTTCCCAATTCAAGCAAAATGTCCTACACTATTACTTAAATAGCGGTGACTCTTACCT
GGATGTTGCCTTGCAGTATGGTTTGCCTTCAGGAGATTTACTTCAAAGTTGGCACCAAAAATTTCTGCGAGAAGGCATCGAAGGTCTTTCACCAAAACAG
AAAGGACGACCTTCGATGTCCAAGAAAAAGAAACAAATTCAGCCCAAGAAACCCATGACACGGGAACAAGCATTAGAACAAGAAAATGAATTATTACGTG
CAGAACTTGCTTTTATAAAAAAGCTCCGCGCTTTAGGAATGGATGTCCCAGAACGACTCAAGAACGAGATGCCCGAATCATCTACGAACTCCGAAGTGAG
TTCCGATTAACGATTCTTCTGCAAGCCACAAAATTTCCTAAAGCGACCTACATGTATTGGCAAAAACGATTAGAACAGAAAAATCCAAATGCATCATTAG
AGAAAAAGATTCAAAAAATATTTGATGAACATCACGGAAACTATGGCTATCGCCGGATTCAACTAGCGTTGAAAGCACAAGGGATAAATGTTAATCAGAA
AAAAGTTCGACGAATTATGGGTAAACTTGGGCTAAAAGGAACCAAGTTTATTCGGAAATCTCGTAGATATAATTCTTACAAAGGAACCATTGGACGAGTG
GCAAAGAACCTTATTCATCGCCGTTTTTATACATCTATTCCTCATCAAAAAGTGACCACGGATACATCGGAATTCAAATATTACGAGCATGATAAAAACA
AGAAACTAGTTATCAAAAAATTGTATTTGGATCCTTTCCTTGATATGTTTAACGGAGAAATTTTATCGTATCGAATTTCTGAACGTCCCAACGCTAAAGC
CATTATGGATGCCCAAAAAGAAGCGATGGACCGCACTGATGATTGCCCCTATCGTCGTACGTTCCATTCTGATCAAGGATGGGCTTACCAAATGAAAGCA
TACAAAAAGCAATTAACTAAGCAAAACATCTTTCAAAGTATGTCACGAAAAGGGAACTGTTTTGACAATTCTCCGATGGAGAATTTCTTTGGACTGTTAA
AACAAGAAATGTATTATGGGGTAATTTATGCCAGCTTTAAACAATTGAAGCAAGCAATAGAAGATTGGATACATTACTACAATCATCATCGAATTAAAAC
GAAACTTGGTTGTAGTCCTATTCAGTACCGCGAACAGATGACCGCATAAAAATACCAACCAGATTTCTCTGGTCGGCATTTGGTCTAACTTTTGGGTCTC
ACTACA
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
558 bp184 aa56613+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

LAKYDDGFKRKVVEAYQNGEGGYRTLAQRFGISHFSLVRKWVKIVEARGFEALQRRRTKQHYTSQFKQNVLHYYLNSGDSYLDVALQYGLPSGDLLQSWH
QKFLREGIEGLSPKQKGRPSMSKKKKQIQPKKPMTREQALEQENELLRAELAFIKKLRALGMDVPERLKNEMPESSTNSEVSSD

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
963 bp319 aa4901452+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

IITCRTCFYKKAPRFRNGCPRTTQERDARIIYELRSEFRLTILLQATKFPKATYMYWQKRLEQKNPNASLEKKIQKIFDEHHGNYGYRRIQLALKAQGIN
VNQKKVRRIMGKLGLKGTKFIRKSRRYNSYKGTIGRVAKNLIHRRFYTSIPHQKVTTDTSEFKYYEHDKNKKLVIKKLYLDPFLDMFNGEILSYRISERP
NAKAIMDAQKEAMDRTDDCPYRRTFHSDQGWAYQMKAYKKQLTKQNIFQSMSRKGNCFDNSPMENFFGLLKQEMYYGVIYASFKQLKQAIEDWIHYYNHH
RIKTKLGCSPIQYREQMTA

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1397 bp464 aa561452+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

LAKYDDGFKRKVVEAYQNGEGGYRTLAQRFGISHFSLVRKWVKIVEARGFEALQRRRTKQHYTSQFKQNVLHYYLNSGDSYLDVALQYGLPSGDLLQSWH
QKFLREGIEGLSPKQKGRPSMSKKKKQIQPKKPMTREQALEQENELLRAELAFIKKAPRFRNGCPRTTQERDARIIYELRSEFRLTILLQATKFPKATYM
YWQKRLEQKNPNASLEKKIQKIFDEHHGNYGYRRIQLALKAQGINVNQKKVRRIMGKLGLKGTKFIRKSRRYNSYKGTIGRVAKNLIHRRFYTSIPHQKV
TTDTSEFKYYEHDKNKKLVIKKLYLDPFLDMFNGEILSYRISERPNAKAIMDAQKEAMDRTDDCPYRRTFHSDQGWAYQMKAYKKQLTKQNIFQSMSRKG
NCFDNSPMENFFGLLKQEMYYGVIYASFKQLKQAIEDWIHYYNHHRIKTKLGCSPIQYREQMTA

 

Blast result :Comments : The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
Comments
ISLse1 is 69% (transposase) aa similar to ISEfa10.
ISLse1 was identified by in silico nucleotide sequence analysis of Listeria seeligeri and Listeria ivanovii plasmids.
References
1] Chmielowska C., Korsak D., Szuplewska M., Bartosik D. (2020) Direct submission.