ISDge16

  • Family IS5
  • Group IS427
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_008010 ND Deinococcus geothermalis
Deinococcus geothermalis DSM 11300
Deinococcus geothermalis DSM 11300 plasmid 1
DNA section
IS Length : 928 bp

Ends


IR Length : 24/27

IRL : GGCGCTAGGGTCTGTCTGGCTGAATTTAGGAAAATGGGGGTATGGGACGG
IRR : GGGCCTAGGGTCTGTCTGGCTGAAGTTTTAGAGCCAGAGGAGGATGCAAG

Insertion site


Left flankDirect repeatRight flankDR Length
ACTCCGCATAGTCAGTTTCGGGGTGGGTGGCC0

DNA sequence

GGCGCTAGGGTCTGTCTGGCTGAATTTAGGAAAATGGGGGTATGGGACGGACGGATTTAACCGAGCAACAGTGGGTGAAATTGGCCCCCCTGCTGCCCGC
TCACCCCAAGCGAGGCCACGCCTACAAGGATCATCGGGTGGTCCTGAACGGCATCGTCTGGCGTCAGAAGACGGGGGCACCGTGGCGGGACATTCCAGAG
CGGTACGGGTCATGGCACACCTGTCATGACCGCTTCACCCGCTGGTCCCGTGATGGGACATGGGCGGCGATTCTCGCCGCCCTGCAACTGAAAGCGGATG
CTGAGGGAAAGATTGATTGGGAAGGTGCGGCAGTGGACAGCACCCACGTCAAAGCCCACCGCAGCGCGGTGGGCGCACGAAAAGAGCCGGCCAAGCTCGA
AAAAAGGGGGCCCTCGAAGACGAGTGGCTTGGCGTCAGTCGTGGAGGACGGACCACCAAAATCCACGTGTTGAGCGACGGCAACCGTCGTCCCCTGAGCG
TCCTGGTGTCTGCCGGGCAGGCGAGTGATCCCACGTACCTGGTGCCGCTTTTGGACGCTGTGCGAGTGGGGCGTCCCGGACCGGGACGCCCGCGGAAGCG
CCCCATCACGGTTCGGATGGACCGGGCCTATGGAGCACGGACCTACCGGCGTGCCCTGCGGGCACGCAAGATCAGGTGTGTCTGCCCTGAACGTCAGGAC
GCCCGCAAAGCTCGGCTGCGCAAGGGCAGCCGAGGTGGACGACCGCCCCAATTTGACGCACAAGCCTACAAAGGCCGTCAGGTCGTGGAATGTGGGATCA
ACCGGCTCAAGGATTTTCGGGCTCTTGCCACCCGGTACGAGAAGCGTGGATACCAGTTTTTAGCCGGTGTCCACGTCGCTTGCATCCTCCTCTGGCTCTA
AAACTTCAGCCAGACAGACCCTAGGCCC
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
432 bp143 aa42473+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MGRTDLTEQQWVKLAPLLPAHPKRGHAYKDHRVVLNGIVWRQKTGAPWRDIPERYGSWHTCHDRFTRWSRDGTWAAILAALQLKADAEGKIDWEGAAVDS
THVKAHRSAVGARKEPAKLEKRGPSKTSGLASVVEDGPPKSTC

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
585 bp194 aa317901+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

LGRCGSGQHPRQSPPQRGGRTKRAGQARKKGALEDEWLGVSRGGRTTKIHVLSDGNRRPLSVLVSAGQASDPTYLVPLLDAVRVGRPGPGRPRKRPITVR
MDRAYGARTYRRALRARKIRCVCPERQDARKARLRKGSRGGRPPQFDAQAYKGRQVVECGINRLKDFRALATRYEKRGYQFLAGVHVACILLWL

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
860 bp286 aa42901+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MGRTDLTEQQWVKLAPLLPAHPKRGHAYKDHRVVLNGIVWRQKTGAPWRDIPERYGSWHTCHDRFTRWSRDGTWAAILAALQLKADAEGKIDWEGAAVDS
THVKAHRSAVGARKEPAKLEKKGALEDEWLGVSRGGRTTKIHVLSDGNRRPLSVLVSAGQASDPTYLVPLLDAVRVGRPGPGRPRKRPITVRMDRAYGAR
TYRRALRARKIRCVCPERQDARKARLRKGSRGGRPPQFDAQAYKGRQVVECGINRLKDFRALATRYEKRGYQFLAGVHVACILLWL

 

Blast result :
Comments
ISDge16 is 56% aa similar to ISMt1.The third ORF is a putative ORFAB tran,sposase 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.