ISHde2

  • Family IS5
  • Group IS427
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
CP001277 ND Candidatus Hamiltonella
Candidatus Hamiltonella defensa 5AT
Acyrthosiphon pisum 5AT
DNA section
IS Length : 852 bp

Ends


IR Length : 19/21

IRL : GGCACTGTTAACAAAGTTAATGTTAAGATATTCTCTGTTTTTTAGGGGGA
IRR : GGCAGTGTTAACAAAGTAAATTAAAGACCTTAAGACAAGCGATAGCGAAG

Insertion site


Left flankDirect repeatRight flankDR Length
ACTTCTTGCATATGTCCCAATCGAAT2

DNA sequence

GGCACTGTTAACAAAGTTAATGTTAAGATATTCTCTGTTTTTTAGGGGGATAAAGAAATGAAAAACAGGCACTATCCGCTCAAAGAGTGTGATTTTATAA
AAATAATCGAACCTCATATTATAAAATATGATAAACGTCCAGGTAGACCTGCAAGCATCAGTCATTATCAGTTTTTTTCAGCTGTTTTGTACGTATTGAG
AACGGGTATCCCTTGGCGTGATGTACCTGATTTATACGGTCATTGGCATACGATTTATATGCGCTTTAAAAGATGGAGTGAAAATGGCTTGTTCTGGAAC
TTGCTTTATCGTTTACAACAAAAAAAGAAAATCAAAATGGACTGTACATGGGTAGACAGTACGACGGTCGCCATCCACCGACACGGCTCAGGAAGCCTTA
AAAAAAGGGACCTCAATCGATAGGGCGCGGCCGAAAAGGCGTGAGCACTCAAATTCACGTGGGTCTTTCAGGCCGCTTTCTCCGGAGTGCCTGTCTATCT
GAAGGACAGCGCTCCGATATGAAAGCCTTTACTGAGCTGTGGATAAAGGGAAATGGGAGGAAGGTGAGCTACATCATCGCTGATAAGGGAGTTGACTTTT
TTGATGTCAGAAAATTAATCCGGGATAGTGGAAAGAGCCCTGTGATACCCCGACGAAAAGGGGCTGTTTGCACCGGCATTCAACCTAATGATAAAGAAAA
ATACAAAACACGCTCTGCGATTGAACGTTTCTTCTTCAGCATAAAAGAACAAAAAAGACTCGCTTTACGCTTTGATAAACTCGATATCACCTTCTTTTCT
TTCTTCGCTATCGCTTGTCTTAAGGTCTTTAATTTACTTTGTTAACACTGCC
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
366 bp121 aa58423+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKNRHYPLKECDFIKIIEPHIIKYDKRPGRPASISHYQFFSAVLYVLRTGIPWRDVPDLYGHWHTIYMRFKRWSENGLFWNLLYRLQQKKKIKMDCTWVD
STTVAIHRHGSGSLKKRDLNR

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
444 bp145 aa402845+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

KKGPQSIGRGRKGVSTQIHVGLSGRLRSACLSEGQRSDMKAFTELWIKGNGRKVSYIIADKGVDFDVRKLIRDSGKSPVIPRRKGAVCTGIQPNDKEKYK
TRSAIERFFFSIKEQKRLALRFDKLDITFFSFFAIACLKVFNLLC

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
788 bp259 aa58845+No
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKNRHYPLKECDFIKIIEPHIIKYDKRPGRPASISHYQFFSAVLYVLRTGIPWRDVPDLYGHWHTIYMRFKRWSENGLFWNLLYRLQQKKKIKMDCTWVD
STTVAIHRHGSGSLKKGPQSIGRGRKGVSTQIHVGLSGRLRSACLSEGQRSDMKAFTELWIKGNGRKVSYIIADKGVDFDVRKLIRDSGKSPVIPRRKGA
VCTGIQPNDKEKYKTRSAIERFFFSIKEQKRLALRFDKLDITFFSFFAIACLKVFNLLC

 

Blast result :
Comments
ISHde2 is 54% aa similar to ISPpa6.
The third ORF is the putative ORFAB transposase reconstrcuted in silico by possible -1 frameshift.
References
1] ISfinder submission (2018)
2] Degnan,P.H., Yu,Y., Sisneros,N., Wing,R.A. and Moran,N.A. (2009) Proc. Natl. Acad. Sci. U.S.A. 106 (22), 9063-9068