ISTli1

  • Family IS982
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_022084 ND Thermococcus litoralis
Thermococcus litoralis DSM 5473
DNA section
IS Length : 905 bp

Ends


IR Length : 15/16

IRL : ACCCTAGTTCCCATCAGATCGTTGGAGTTATAAGCACTTAAGTTTTTTGG
IRR : ACCCTAGTTCCCACCACCTGTGAAGTTGTACAATCTGTCCAGATTCACGG

Insertion site


Left flankDirect repeatRight flankDR Length
TTAAAATTAACACGAGAGTA0

DNA sequence

ACCCTAGTTCCCATCAGATCGTTGGAGTTATAAGCACTTAAGTTTTTTGGTTGATTGGTGGTTGTATTGAGCTTTCAGAGGAAAATCCTGATCATAAAAT
CCGAAATCTACCCGATAGTCAGCAAACACTACCCAAAAAACACTCACAGGGAAATAATCAGCCTCTACGACCTGATAACCTTCGCAATACTAGCACACTT
GCACTTTAACGGAGTTTACAAGCACGCTTACAGAGTCCTAATCGAAGAAATGAAGCTAACAGAACGCTTGAACAGGCACGAAAAACTCCTACTCCTAGCA
CAGGAAGAATTATTCAAAAAACACGCCAGAGAATACGTTAGAATACTGGACTCAAAGCCCATTCAGACCAAGGAGTTGGCCAGAAAAAACAGGAAGGATA
AGGAGGGTTCTTTAGAAGTCATCTCTGAAAAGCCTGCAGTTGAGTTTTTTCCCTCTAAAAAAAGTTTTACTATGGGTACAAGCTGACCTGTTACTCTGAT
GGAAATTTGCTGGCTTTACTGTCTGTTGATCCGGCGAATAAGCATGATGTGAGTGTTGTCAGGGAAAAGTTCTGGGTGATTGTTGAGGAGTTTTCTGGCT
GTTTTCTGTTTTTGGATAAGGGGTATGTTAGCAGGGGGCTCGAGGAGGAATTTCTGAGGTTTGGCGTTGTTTACACGCCAGTAAAGCGGGGGAATCAGAT
TAGTAATCTGGAAGAGAAGAAGTTTTACAAGTACGTGTCTGACTTTCGCAGGAGGGTTGAGACTTTGTTTTTTAGGTTTTCTGAGTTTCTTCTGAGGCTG
AGCAGGAGTGTTAGTTTGAGGGGGTTAACTGTCAGGATTTTAGGGGCGATTCTGGCCGTGAATCTGGACAGATTGTACAACTTCACAGGTGGTGGGAACT
AGGGT
Recoding section
  • Recoding by frameshift
  • Frame
  • Type
  • Experimentally demonstrated

Stimulators :

  • Shine-Dalgarno sequence :
  • Secondary structure :

Recoding motif :

Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
429 bp142 aa58486+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MVVLSFQRKILIIKSEIYPIVSKHYPKNTHREIISLYDLITFAILAHLHFNGVYKHAYRVLIEEMKLTERLNRHEKLLLLAQEELFKKHAREYVRILDSK
PIQTKELARKNRKDKEGSLEVISEKPAVEFFPSKKSFTMGTS

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
444 bp147 aa459902+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

KKFYYGYKLTCYSDGNLLALLSVDPANKHDVSVVREKFWVIVEEFSGCFLFLDKGYVSRGLEEEFLRFGVVYTPVKRGNQISNLEEKKFYKYVSDFRRRV
ETLFFRFSEFLLRLSRSVSLRGLTVRILGAILAVNLDRLYNFTGGGN

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
845 bp280 aa58902+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MVVLSFQRKILIIKSEIYPIVSKHYPKNTHREIISLYDLITFAILAHLHFNGVYKHAYRVLIEEMKLTERLNRHEKLLLLAQEELFKKHAREYVRILDSK
PIQTKELARKNRKDKEGSLEVISEKPAVEFFPSKKFYYGYKLTCYSDGNLLALLSVDPANKHDVSVVREKFWVIVEEFSGCFLFLDKGYVSRGLEEEFLR
FGVVYTPVKRGNQISNLEEKKFYKYVSDFRRRVETLFFRFSEFLLRLSRSVSLRGLTVRILGAILAVNLDRLYNFTGGGN

 

Blast result :
Comments
ISTli1 is 92% aa similar to ISPfu3. The third ORF is the potential ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] ISfinder annotation (2014)
2] Gardner,A.F., Kumar,S. and Perler,F.B.(2012)J. Bacteriol. 194 (9), 2375-2376