ISDsp1

  • Family IS3
  • Group IS407
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_009455 ND Dehalococcoides sp.
Dehalococcoides sp. BAV1
DNA section
IS Length : 1210 bp

Ends


IR Length : 23/30

IRL : TGACCTGCCCCCCGAAAACGAGCCCAGTTTCATGTTAGACTGGAAAATAA
IRR : TGACCTGCCCCCGATAGTGATACCACTTTTTAAGTAGTTACCACTGCCAT

Insertion site


Left flankDirect repeatRight flankDR Length
TGAAATTACCACCCGTTTATTTAG4

DNA sequence

TGACCTGCCCCCCGAAAACGAGCCCAGTTTCATGTTAGACTGGAAAATAAGAAAAGGGGAAATCAGATGCCCAGGAAATCTTTTACACCGGAACAGATCA
TCAATAAGCTTCGCGAGGCTGAGATACTCATCAGCCAGGGAACTACACTTGCAGTCATGCTAAAGAAGATTGAAGTCAGTGACTGTACCTACTACCGCTG
GCGCCAAGAATACGGTGGTATGCGTATTGAGCAGGCAAAACGCCTCAAAGAACTCGAAGTGGAAAACACCCGCCTTAAGAAACTTGTAGCCGATCTCTCA
TTGGATAAAGCTATTTTGAAAGAGGCCGCACGGGGAAACTCCTAAGCCCGCACAAGAGACAGCAGATAATTGAGAGAATTCAGAGTAACCTCAAGGTCTC
CCAGAGGCGGGCATGCCAAGTACTATATCAATCCAGAGCTACTCAACGCCGCAGCCGGGAAATACCAGGTGAGGAGAAACGGCTGGTGGCTGATATCATT
GAACTGGCTAGTAAGTACGGCAGGTATGGTTATCGGCGAATCACAGCGTTACTCAATGAAAGAGGCTGGAGAGTGAACCATAAAAGAGTAGAGAGAATTT
GGCGTACCGAGGGACTCAGGGTGCCCAAGAAGCAGCCCAAGCGGAGTCGGCTATGGCTCAATGACGGTTCGTGCATCAGACTAAGACCGGAGCGTAAGAA
TCATGTCTGGAGTTATGATTTTGTCACTGCCAGAACCGCTGACGGCCGGGCTTTCCGGATGCTTAATATCATCGATGAATATACTCGTGAGTGTCTAGCC
ATAACGATCAACCGGCGATTGACTTCAGAAGACGTCATAGACCAACTCTTTAATCTATTCATTTTTAGGGGTATCCCGGAACATATAAGGTCAGACAACG
GACCCGAATTTACCGCCAAAGCAATACGCAAGTGGTTGACCCGACTTGGCATCAAGACTCTTTTCATCGAACCCGGCTCTCCTTGGGAGAATGGCTACAT
TGAATCATTCAACGGCAAACTGCGAGATGAATTATTGAACTTGGAGATCTTTACTACGCTTGCTGAAGCTCGGGTATTGATTACTGACTGGAGGAGGCAG
TACAATCAAGTCCGGCCTCACAGCTCTCTTGGTTATCGTCCTCCAGCACCGGAGGCAATAATGGCAGTGGTAACTACTTAAAAAGTGGTATCACTATCGG
GGGCAGGTCA
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
279 bp92 aa67345+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MPRKSFTPEQIINKLREAEILISQGTTLAVMLKKIEVSDCTYYRWRQEYGGMRIEQAKRLKELEVENTRLKKLVADLSLDKAILKEAARGNS

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
873 bp290 aa3091181+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

SYFERGRTGKLLSPHKRQQIIERIQSNLKVSQRRACQVLYQSRATQRRSREIPGEEKRLVADIIELASKYGRYGYRRITALLNERGWRVNHKRVERIWRT
EGLRVPKKQPKRSRLWLNDGSCIRLRPERKNHVWSYDFVTARTADGRAFRMLNIIDEYTRECLAITINRRLTSEDVIDQLFNLFIFRGIPEHIRSDNGPE
FTAKAIRKWLTRLGIKTLFIEPGSPWENGYIESFNGKLRDELLNLEIFTTLAEARVLITDWRRQYNQVRPHSSLGYRPPAPEAIMAVVTT

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1115 bp371 aa671181+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MPRKSFTPEQIINKLREAEILISQGTTLAVMLKKIEVSDCTYYRWRQEYGGMRIEQAKRLKELEVENTRLKKLVADLSLDKAILKEAARGKLLSPHKRQQ
IIERIQSNLKVSQRRACQVLYQSRATQRRSREIPGEEKRLVADIIELASKYGRYGYRRITALLNERGWRVNHKRVERIWRTEGLRVPKKQPKRSRLWLND
GSCIRLRPERKNHVWSYDFVTARTADGRAFRMLNIIDEYTRECLAITINRRLTSEDVIDQLFNLFIFRGIPEHIRSDNGPEFTAKAIRKWLTRLGIKTLF
IEPGSPWENGYIESFNGKLRDELLNLEIFTTLAEARVLITDWRRQYNQVRPHSSLGYRPPAPEAIMAVVTT

 

Blast result :
Comments
ISDsp1 is 73 % (ORFA) aa similar to ISMyma1 and 62% (ORFB) aa similar to ISBcen23. 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., Pitluck,S. and Richardson,P. (2006) Direct submission GenBank.