ISHvo16

  • Family IS630
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
CP001955 ND Haloferax volcanii
Haloferax volcanii DS2 plasmid pHV4
DNA section
IS Length : 1055 bp

Ends


IR Length : 22/26

IRL : TAGTAATCGTTAGAACTTTTTACTCAGAGACTCTTGTAAGAGATAGTGAA
IRR : TAGTATTCGTTAGAAGTAATTACTCACTTTTGGGACCGAAAGCTGGTCAA

Insertion site


Left flankDirect repeatRight flankDR Length
TAATCCACCTACTAGCATGTTTGGTG2
ACGACTGCGAGTTAGGTCCCGACGCG2

DNA sequence

TAGTAATCGTTAGAACTTTTTACTCAGAGACTCTTGTAAGAGATAGTGAACCATCTCGACGAGATTTCCGTCGAGGAATTACAAGACACTCTCGACAACG
TGGACGGAAAGAAGCCGACACAACGGCTCTTAGCGGCTATCGCGTACAAGAACGGTGTCACGCAGACCGAGCTAGCCGAGTGGTACGGTGTTCAACGCCG
GACGATCTACAGCTGGCTCAAGCGACTCGACACCGACGAGTCGCTTGAGCAAGCCGTTTCTGACGATAAACGAACCGGAAGGAAGCGAAAGCTTTCAGAA
ACACAGCAAAGCGAATTTCAAGAGACCGTCCACGAACCTCCTGAAGAAGTTGGGCTCGACGCGCCGGCGTGGACGCCGGCGCTTGCCCAAGAATTTCTCG
AGGAAACATACGGCGTCGAGTATTCAATCCCGAGTTGTCGGCGGTTGCTGAAAGAAGCGGGATTGAGATATCAGAAACCACGCCGTACAGCCGCCGAAGC
CGACGAAGACGAGCAAGAAGCGTTCTACGAAGAACTCAAAAAAAGCGGCGGAAGATGGACGCCACCGTAGTCTGTATCGACCAAACCAAGAAATCCGTGC
AAGTTGAGCCGCGTGCCGCGTGGTTTCCACGTGGCACGCGGCCCTCGGTCAAACTCTCTGGTCAACGCGACTGGACGTGTCTGCTGGGCGCGATCACCGA
GGACGGTGATCGCTTCTTTTCACGATTCGAGGAGTACGTCACCGCTGAACACGCGAAACATTTCATTTTAGCACTATGTAAAGAATTTGAAGATGACTTG
CTCGTGGTGCTAGATGGTGCGCCGTACTTTCAAGCGTCGGCCGTCACGGACCTGGCGGCCCGTGACGACCTCGCGTTCGTGACGCTTCCATCATACTCGC
CGGAACTAAACCCGGTTGAGGAGTGCTGGAGACAGCTTCAAGCAGCGTTGAGCAACCGGTTTTTCGACTCACTTGACGAGTTAACGACAGCGATAGACGC
CGCTCTTGACCAGCTTTCGGTCCCAAAAGTGAGTAATTACTTCTAACGAATACTA
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
525 bp174 aa46570+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MNHLDEISVEELQDTLDNVDGKKPTQRLLAAIAYKNGVTQTELAEWYGVQRRTIYSWLKRLDTDESLEQAVSDDKRTGRKRKLSETQQSEFQETVHEPPE
EVGLDAPAWTPALAQEFLEETYGVEYSIPSCRRLLKEAGLRYQKPRRTAAEADEDEQEAFYEELKKSGGRWTPP

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
702 bp233 aa3451046+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

RSWARRAGVDAGACPRISRGNIRRRVFNPELSAVAERSGIEISETTPYSRRSRRRRARSVLRRTQKKRRKMDATVVCIDQTKKSVQVEPRAAWFPRGTRP
SVKLSGQRDWTCLLGAITEDGDRFFSRFEEYVTAEHAKHFILALCKEFEDDLLVVLDGAPYFQASAVTDLAARDDLAFVTLPSYSPELNPVEECWRQLQA
ALSNRFFDSLDELTTAIDAALDQLSVPKVSNYF

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1001 bp333 aa461046+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MNHLDEISVEELQDTLDNVDGKKPTQRLLAAIAYKNGVTQTELAEWYGVQRRTIYSWLKRLDTDESLEQAVSDDKRTGRKRKLSETQQSEFQETVHEPPE
EVGLDAPAWTPALAQEFLEETYGVEYSIPSCRRLLKEAGLRYQKPRRTAAEADEDEQEAFYEELKKKRRKMDATVVCIDQTKKSVQVEPRAAWFPRGTRP
SVKLSGQRDWTCLLGAITEDGDRFFSRFEEYVTAEHAKHFILALCKEFEDDLLVVLDGAPYFQASAVTDLAARDDLAFVTLPSYSPELNPVEECWRQLQA
ALSNRFFDSLDELTTAIDAALDQLSVPKVSNYF

 

Blast result :
Comments
ISHvo16 is 57% aa similar to ISHwa16. IS_pep_3 is HVO_A0100.
The third ORF is an ORFAB transposase reconstructed in silico by a +1 frameshift probably reflecting ribosomal slippage.
References
1] Pfeiffer, F. (2013) Direct submission
2] Hartman, A.L., Norais, C., Badger, J.H., Delmas, S., Haldenby, S., Madupu, R., Robinson, J., Khouri, H., Ren, Q., Lowe, T.M., Maupin-Furlow, J., Pohlschroder, M., Daniels, C., Pfeiffer, F.,
Allers, T., Eisen, J.A. (2010) PLoS ONE 5, E9605-E9605