ISWci2

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
CP012873 ND Weissella cibaria
Weissella cibaria CH2 chromosome
Weissella cibaria CH2 plasmid pMKC01
Weissella cibaria BM2 chromosome
DNA section
IS Length : 1486 bp

Ends


IR Length : 23/33

IRL : tgctcttatgctagatttacggacagatttttctctgccctgtaaactaa
IRR : taggcgctgatgtcaagattatggacaggttttttcggcaccgagagggg

Insertion site


Left flankDirect repeatRight flankDR Length
ATTGAGCGCTGATAATGTACTAACGTGGGCTAATTAAATG0
GGCAGATAAGCTTCAAGAAGACGATCCACAAAATTACATT0
TCAGGCTAAAACTGAAAATGGGCAATGCTTGATGGTGCCA0

DNA sequence

tgctcttatgctagatttacggacagatttttctctgccctgtaaactaatagcagaggagcattttttatatgattcgatattcaccagaatttaagca
atctcttgtcgagatgcacaaccaagggcgttcttacactgaactagccgctgaatacgggccttcggccgattcaatccgtaactgggtcaaattgtac
acagtccacgaagtggacggcgaaaaatggacgcaagctgatgtaaacgcattacaaaaggaaaacgccaaacttcgcgaagaacttgagattttaaaac
gagccgcggtgttgctttcgaagtacaattaacgcaaaatcgcgagttaggactggaaatcattgaccggtcactcgcaatgggacaccgcataacaagc
gttttatcggctttgaactttgctcgaagcacgtattatcaatggaaaaactggcaacctagccaacgagaaacacggcgtaatgctctgaaaacggcaa
ttaaaggcgtttataacaccaatcgtggcatctatggctaccgtcgtatcgcagcgttcttgcgcttcattttgaagactgatgttggcgatcgtttggt
ttgggaactcatgaatgagctcaatctcaaatctcgcatggtcaagaagtcatacaagaagccaacaacaaccactgacacacctcaaaagcccaacctc
atgaagaagttggatgatttgagtggcgttctggcaactgacattacgtacatccagttgatgaatcgtgagtgggtttatctggcaaccgtctatgacc
cagaaaagcgtcgtgtagtctcatacggactaagcccagagatgaccaaggaattcgcaacatccgtcgtagttaaggctctaagagccaacggtaagcc
aaagatgattcacagcgacatgggaagccaatacacttctagcctgttcgaaggaacattacaaaactctggaataaatcactcttattcccgtaagggg
catccttacgataacgctcgtatcgagagcttccattcgctcatcaagcgcgaaatgatttatcacgaagagtacaggaccattgatgatgttcgtgtgt
ctgtcgagtggtatgtgaactggtacaacaacagtcgcattaactcacgcactgattggcttcaggccgcctagaccaatgtctggtttacttaatcacg
gttatcggcactagccggcacgacgccgtttataagccgtcacttatgaatttcaaaaattcgccttgtgaaggcttatttgttgcacgatacaacttgt
gaaatccggatggttcacaatctataccacctgttttctctcaccggcaggtctcggccctgttctacctacaaaaacaccgagaaatgacgccttttta
agctgaaatccgggttttgaaaaattttcggagtccggcccctctcggtgccgaaaaaacctgtccataatcttgacatcagcgcc
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
261 bp86 aa72332+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MIRYSPEFKQSLVEMHNQGRSYTELAAEYGPSADSIRNWVKLYTVHEVDGEKWTQADVNALQKENAKLREELEILKRAAVLLSKYN

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
885 bp294 aa2901174+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

DFKTSRGVAFEVQLTQNRELGLEIIDRSLAMGHRITSVLSALNFARSTYYQWKNWQPSQRETRRNALKTAIKGVYNTNRGIYGYRRIAAFLRFILKTDVG
DRLVWELMNELNLKSRMVKKSYKKPTTTTDTPQKPNLMKKLDDLSGVLATDITYIQLMNREWVYLATVYDPEKRRVVSYGLSPEMTKEFATSVVVKALRA
NGKPKMIHSDMGSQYTSSLFEGTLQNSGINHSYSRKGHPYDNARIESFHSLIKREMIYHEEYRTIDDVRVSVEWYVNWYNNSRINSRTDWLQAA

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1103 bp367 aa721174+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MIRYSPEFKQSLVEMHNQGRSYTELAAEYGPSADSIRNWVKLYTVHEVDGEKWTQADVNALQKENAKLREELEILKTSRGVAFEVQLTQNRELGLEIIDR
SLAMGHRITSVLSALNFARSTYYQWKNWQPSQRETRRNALKTAIKGVYNTNRGIYGYRRIAAFLRFILKTDVGDRLVWELMNELNLKSRMVKKSYKKPTT
TTDTPQKPNLMKKLDDLSGVLATDITYIQLMNREWVYLATVYDPEKRRVVSYGLSPEMTKEFATSVVVKALRANGKPKMIHSDMGSQYTSSLFEGTLQNS
GINHSYSRKGHPYDNARIESFHSLIKREMIYHEEYRTIDDVRVSVEWYVNWYNNSRINSRTDWLQAA

 

Blast result :
Comments
ISWci2 is 66% aa similar to IS1520.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Korcari D. (2018) Direct submission to ISfinder
2] Fortina M.G., Ricci G., Quattrini M., Korcari D., paper in preparation