ISEic1

  • Family IS1
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_012779 ND Edwardsiella ictaluri
Edwardsiella ictaluri 93-146
DNA section
IS Length : 764 bp

Ends


IR Length : 17/21

IRL : GGTAGTGACTCCAAATTAGTGTCGTGGTACTATTCGCCTTTTGGATAAGA
IRR : GGTCATGACTCAAATTTAGTGGTAATGGTTGATTGTTAGATACCAGCCGA

Insertion site


Left flankDirect repeatRight flankDR Length
TATTCTTTTGTAAAACGCTGACTTATTC8
ATTTCAAATGGTATTTTGCCATAAAAAA8
TGATAGCGCAGGCATTCCCGTGACAAAG8
ATCTCTCCGCAATTCGTGCGTCCGTTTG8
ACCAATTCCCCGATTTTGGG0
CGTCGATTTCGAATCATGTG0
AGCAAAAAAGCAGTTAGTGG0

DNA sequence

GGTAGTGACTCCAAATTAGTGTCGTGGTACTATTCGCCTTTTGGATAAGAAATGGCAAAGATTGATGTGGTTTGCCCCCGCTGCACCAAAACTCAGGGAG
TTATCCGTAATGGTCACTCCACTTCTGGCGCTCAGCTCTATCGCTGCAAGCTCTGCCTGAAAACCTTCCAGCTCAACTTTCAATATAACGCAGCTAAACC
CAACACCCATCAATCCATTATTGCTATGGCAATGAACGGCTCCGGATGTCGTGACACGGCACGGGTTCTTGATATCAGCCTCAATACTGTCCTCCGCCAC
CTAAAAAACGGGAACCGAGACAGCGAGCGCAACACGTAGAGCCGGGAGCCGAAGTCGTTATCTGCTGTGAAGCTGATGAACAGTGGTCATTCGTTCGTTG
TAAGAGCAATCCTCGCTGGCTCTTCTATGCGTATGACCGTATTCGAAAGCGGGTTCTTGCTCATGTCTTTGGCCCTCGAAATGCGTTGACGTTACAGCGG
CTTCTAGCGTTAGTGAGAAAATTTAATATTGCCTTCTACATGACCGATGCCTGGCCGGTATACCGGACGCTGCTGGATCCAGCTCACCATGTAGTCAGCA
AGAAATATACCCAACGCATAGAACGCCATAACTTGAATCTGCGAACTCATCTCAAACGGCTTACCCGAAGGACAATCTGCTTCTCCAAATCAGAAGAAAT
GCACGATAAGGTCATCGGCTGGTATCTAACAATCAACCATTACCACTAAATTTGAGTCATGACC
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
288 bp95 aa52339+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MAKIDVVCPRCTKTQGVIRNGHSTSGAQLYRCKLCLKTFQLNFQYNAAKPNTHQSIIAMAMNGSGCRDTARVLDISLNTVLRHLKNGNRDSERNT

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
477 bp158 aa273749+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

YQPQYCPPPPKKREPRQRAQHVEPGAEVVICCEADEQWSFVRCKSNPRWLFYAYDRIRKRVLAHVFGPRNALTLQRLLALVRKFNIAFYMTDAWPVYRTL
LDPAHHVVSKKYTQRIERHNLNLRTHLKRLTRRTICFSKSEEMHDKVIGWYLTINHYH

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
698 bp232 aa52749+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MAKIDVVCPRCTKTQGVIRNGHSTSGAQLYRCKLCLKTFQLNFQYNAAKPNTHQSIIAMAMNGSGCRDTARVLDISLNTVLRHLKKREPRQRAQHVEPGA
EVVICCEADEQWSFVRCKSNPRWLFYAYDRIRKRVLAHVFGPRNALTLQRLLALVRKFNIAFYMTDAWPVYRTLLDPAHHVVSKKYTQRIERHNLNLRTH
LKRLTRRTICFSKSEEMHDKVIGWYLTINHYH

 

Blast result :
Comments
ISEic1 is 71% aa similar to IS1X1.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
References
1] ISfinder annotation (2010)
2] Williams,M.L., Gillaspy,A.F., Dyer,D.W., Thune,R.L., Waldbieser,G.C., Schuster,S.C., Gipson,J., Zaitshik,J., Landry,C. and Lawrence,M.L. (2009) Direct submission Genbank.