ISHahy3

  • Family IS3
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
CP002304 ND Halanaerobium hydrogeniformans
Halanaerobium hydrogeniformans
DNA section
IS Length : 1360 bp

Ends


IR Length : 9/16

IRL : TGTGACCCCCCCTAAATATATTGGACAGATACCAATTTAACATCTTATAA
IRR : TGAGCTAGCCCCTCTAATCTTGGACAAACTTTAATATGATTTGTTAAACA

Insertion site


Left flankDirect repeatRight flankDR Length
CCTGTCTTAGTCCTTATATTCTTAAAAAAGACTTTAATATAATTTATTAAAAAGCA4
AAATAGTTTTAAGAAGGTTGTTGCGCCCTCAAGGCTTATATAGTAATATAAAAGATAATA0

DNA sequence

TGTGACCCCCCCTAAATATATTGGACAGATACCAATTTAACATCTTATAATAATTACAGGGGGTAAAAGCAAATGCCTAAAAGTTATGATCCTGAAGAAA
AAATGGAAATTGTTCTTCGAGCTATCAAAGGTGAAAAAATATCTGATCTTGCTGATGAATATAGTGTCAGCCGTAATTCCATCTACCTATGGAAAAAAGA
ATTCTTAAACGGAGGTATGAGTAAACTCAGTGGTGAATCTGCTACTGAACAGGAAGCTAAACTTAAGAAAAAAGACGAACAAATTAAAGAGATGGAAAAA
ATTATTGGCCAACAGAAAGTCCAGATGGAAATCCTTAAAAAAAAGCCCTGGCAGAACTAAATACTGTCGATAAAATCAAGATAATTAATCAGCTTAAATC
AGAATATACTGTAGCAGAACTATGCCGAACTTTTGATATAGCCAGGAGCACCTATTATTACCGTCAGAACAATGATCAAAAAGAGAAAGATACTAATACT
GAAGATCAACTTTACACTGGTCATCCAGCTTATGATAAAGATGGTAATTTAGTTCCAGAAAAAGAGGTTGTTAAATTGGTTAAAAAGTACTGTGATGAGT
CTCCTCATCTGGGCTATAGAATGGTAACTGATTACTTGAATTATACAGAAAATCTAAAAGTTAATCATAAGCGTATTTACCGTATAATGAAAGTCTTAGA
TCTACTACAGGATAAGAGAGTTCCAAAACCTAAAAATTATCAATTAAAACAAAAACATGAACTCACTGGACCTGACCAGCTCTGGGAGATGGATATGGTC
CAGATGTACATAGATAACAGTGGCCAGTGGGTATATATGTTTGATATTATTGATGTATTTACCAGAGAGATTGTAGGTCATCATGAAGGATTAAGATGCC
GCACAAAAGAAGCTCTTAAAGCCCTTGAAAAGGCAATAGAAAATCGGAATACTGATAATCTAATATTAAGAACTGATAATGGTACCCAGTTTAGAAGTCG
AGAGTTTCAGACCAGGATTAGAGAGCTTGATATATCTCATGAAAGAACAATGGTAAACACACCAGAAGAAAACGCCCATATTGAGAGCTTTCACGGCACA
TTAAAAAGAGCTGAAGTATATCAAAAACATTACCGCAGCATAACCCACTGCAGGAATTCTATTGCTAAATTTGTTGATAAATACAACAATAGGAGACCAC
ATTCATCTGTTGGTAAAATACCACCAGCAGTTTATCATAAAAATGTTCTTAACAACTTAGTTTCAGGAATTAGATTTGCTGCATAAGCAGTTAATTTATT
GAAAAAACTATGTTTAACAAATCATATTAAAGTTTGTCCAAGATTAGAGGGGCTAGCTCA
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
288 bp95 aa73360+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MPKSYDPEEKMEIVLRAIKGEKISDLADEYSVSRNSIYLWKKEFLNGGMSKLSGESATEQEAKLKKKDEQIKEMEKIIGQQKVQMEILKKKPWQN

 

Blast result :Comments : OrfA
ORF 2
LengthBeginEndStrandFusion ORF
948 bp315 aa3391286+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

KKALAELNTVDKIKIINQLKSEYTVAELCRTFDIARSTYYYRQNNDQKEKDTNTEDQLYTGHPAYDKDGNLVPEKEVVKLVKKYCDESPHLGYRMVTDYL
NYTENLKVNHKRIYRIMKVLDLLQDKRVPKPKNYQLKQKHELTGPDQLWEMDMVQMYIDNSGQWVYMFDIIDVFTREIVGHHEGLRCRTKEALKALEKAI
ENRNTDNLILRTDNGTQFRSREFQTRIRELDISHERTMVNTPEENAHIESFHGTLKRAEVYQKHYRSITHCRNSIAKFVDKYNNRRPHSSVGKIPPAVYH
KNVLNNLVSGIRFAA

 

Blast result :Comments : OrfB
ORF 3
LengthBeginEndStrandFusion ORF
1214 bp404 aa731286+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MPKSYDPEEKMEIVLRAIKGEKISDLADEYSVSRNSIYLWKKEFLNGGMSKLSGESATEQEAKLKKKDEQIKEMEKIIGQQKVQMEILKKKALAELNTVD
KIKIINQLKSEYTVAELCRTFDIARSTYYYRQNNDQKEKDTNTEDQLYTGHPAYDKDGNLVPEKEVVKLVKKYCDESPHLGYRMVTDYLNYTENLKVNHK
RIYRIMKVLDLLQDKRVPKPKNYQLKQKHELTGPDQLWEMDMVQMYIDNSGQWVYMFDIIDVFTREIVGHHEGLRCRTKEALKALEKAIENRNTDNLILR
TDNGTQFRSREFQTRIRELDISHERTMVNTPEENAHIESFHGTLKRAEVYQKHYRSITHCRNSIAKFVDKYNNRRPHSSVGKIPPAVYHKNVLNNLVSGI
RFAA

 

Blast result :
Comments
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Frank R. (2017) Direct submission to ISfinder
2] Brown S.D., Begemann M.B., Mormile M.R., Wall J.D., Han C.S., Goodwin L.A., Pitluck S., Land M.L., Hauser L.J. and Elias D.A. (2011) J. Bacteriol. 193, 3682-3683