ISDge3

  • Family IS1
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_008025 ND Deinococcus geothermalis
Deinococcus geothermalis DSM 11300
DNA section
IS Length : 748 bp

Ends


IR Length : 19/22

IRL : GGTAGTGGCTGCGAAGACGTGATGTACTGGTGGGGTGCTCGAGTGCCCAG
IRR : GGTAGTGGCTGCGTCAACGTGACAGGTTGTAGCGGTGGAAGGCCAGGGTA

Insertion site


Left flankDirect repeatRight flankDR Length
GTCCGGTGATTCAGTGACTGCCCTTGAAGT2

DNA sequence

GGTAGTGGCTGCGAAGACGTGATGTACTGGTGGGGTGCTCGAGTGCCCAGCGTGCGGAAGTGTTCAGAGCGTCAGGAATGGCAAGGCCAAGAACGGCACC
CAGACGTATCTCTGTAAAGTTTGCGGTCGCCGCTTCCACCCAGACGCTAAACCTGTGGCACACAGCGAGGCCACCCGCGCTCAGATTCTCGATGCCGTCC
ACGAACGGATGAGTCTCAGGGGCGTGCAGCGCGTCTTTGGCGTCCACCGCAACACGGTCATCCGGTGGATAAAAAGGGGGCCGCCGAAGTGACGCAGACC
CCTGGGGTCTGCGTCACTCCCCCAGACGAGGTGGTTGTTGAACTGGACGAGTTGTGGACCTTCGTGGGCAAGAAAAAGCAGGCGAGGTGGTTGTGGATCG
CCCTAGAGCGCCGCACCCGAAAGGTGCTGGCTTGGGTCCTTGGAGACCGCAGCGAAGCGACCGCTTTCAAGTTGTGGGACCGCTTGCCCCTCTCCCCAGA
GCAGCGCCTGAAAGGCACTTTTTGCACGGACCTCTGGCGTGCCTATGATGAACCGTTGTTGGGCGTCAAACGGCTGACCCGCCGAGGGGACACCAACCAT
GTCGAGCGGCTGAACTGCACCTTGAGACAACGCCTGGGTCGTCTGGTCCGCAAGTCCCTCTCGTTCTCGAAGTCAGACGAGATGCTCGAAGCTTCACTTA
CCCTGGCCTTCCACCGCTACAACCTGTCACGTTGACGCAGCCACTACC
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
258 bp85 aa35292+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

VLECPACGSVQSVRNGKAKNGTQTYLCKVCGRRFHPDAKPVAHSEATRAQILDAVHERMSLRGVQRVFGVHRNTVIRWIKRGPPK

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
585 bp194 aa151735+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

TCGTQRGHPRSDSRCRPRTDESQGRAARLWRPPQHGHPVDKKGAAEVTQTPGVCVTPPDEVVVELDELWTFVGKKKQARWLWIALERRTRKVLAWVLGDR
SEATAFKLWDRLPLSPEQRLKGTFCTDLWRAYDEPLLGVKRLTRRGDTNHVERLNCTLRQRLGRLVRKSLSFSKSDEMLEASLTLAFHRYNLSR

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
701 bp233 aa35735+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

VLECPACGSVQSVRNGKAKNGTQTYLCKVCGRRFHPDAKPVAHSEATRAQILDAVHERMSLRGVQRVFGVHRNTVIRWIKKGAAEVTQTPGVCVTPPDEV
VVELDELWTFVGKKKQARWLWIALERRTRKVLAWVLGDRSEATAFKLWDRLPLSPEQRLKGTFCTDLWRAYDEPLLGVKRLTRRGDTNHVERLNCTLRQR
LGRLVRKSLSFSKSDEMLEASLTLAFHRYNLSR

 

Blast result :
Comments
ISDge3 is 95% aa similar to ISDge2. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Brettin,T., Bruce,D., Han,C., Tapia,R., Saunders,E., Gilna,P., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Daly,M.J., Fredrickson,J.K., Makarova,K.S., Gaidamakova,E.K., Zhai,M. and Richardson,P. US DOE Joint Genome Institute. (2006) Direct submission GenBank.