ISCaa9

  • Family IS5
  • Group IS1031
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_010830 ND Candidatus Amoebophilus
Candidatus Amoebophilus asiaticus 5a2
DNA section
IS Length : 871 bp

Ends


IR Length : 16

IRL : GAGGCTGTCTAAAAAGGGTAATTTAGATAGGAAAAGCAGACAAAACTTTA
IRR : GAGGCTGTCTAAAAAGCCAAAATGGAGTCATAAAAGCCGCTTAAGCATGA

Insertion site


Left flankDirect repeatRight flankDR Length
TGCGACCGTCTTAAAGCAAAGCG3
GCAGAAACTCTTAGACACTTTAG3
CTTATTGCTCTTAGACCTTGTTG3
CCCTAATGACTTAGAGGATAAAT3
TGAATGGCTCTAAGAGTGCCAGC3
TTATCTGCTCTAAGAGAACGTTT3
ACAATAGTTTTTATAGCTAGTTG3
TGGTGACCTCTTATAGCAGCAAT3
AGCCAGCTTCTAAGAGATACCCA3
GAAACTCTAATTAGAGCAAC0
TGAACTCTTATAAGAAAACT0
TAATCTCTAATTAGGGTTGA0
AAAACTCTAATTACCTAAAG0
ATTGCTCTTATAAGAGGTTA0
TAACCTCTTATGAGAGGTTT0

DNA sequence

GAGGCTGTCTAAAAAGGGTAATTTAGATAGGAAAAGCAGACAAAACTTTATAAAATTAGTTAGTGAACTTTAAACTAACAGCTATGCCATACACTAGCGA
TTTAACAGATAAGGAATGGGAAGTGTTAGAACCATTAGTTACTTACATAGGTCCTTGCCGACCCCGTAAATACACTATAAGAGAAGTATTAGATGCTATT
TTCTATTTAGAAAAAACAGGCTGTCAATGGCGCATGCTACCTGCCCATTTTCCACCCTGAAAAAGTGTTTATGACTTGTATTATCGCTGGCGAAGAAATG
GTAAATGGGACTTAGTCCATGATACACTTCGAGATCAAGTACGAGAAAAGTTGGGCAAACAAGCCATACCTAGCGCTGCCATTATGGATAGCCGCTCGGT
TAAAACAGCACAAAAAGGGGGTCGAGAGGCTATGATGCAGCAAAAAAAGTAAAAGGCCGTAAGCAGCATATTATTGTTGATACGCTGGGGCTTATACTTT
GTGTGGTAGTACATTCAGCTCACTTATCAGACTCAAGAGGATGTCATCTTTTGCTTATTCGCCTTTTTAATACATTCCCTTCTATTAAACACATATGGGT
AGATGGAGGATACCAGAAAGGATGTATAATGTGGGCTTATGGGGTGCTAGGTTATACTTTAGAAGTTGTACAACGGCTCTCAAATGGGTTTCATATTCTA
AAAAAGCGATGGATAGTCGAGCGTACATTTGCTTGGCTGAGTTTTTCTAGGAGGCTCTCTAAAGATTACGAGCATAATCCCAAGTCTTCTGAAACACATA
TTAAAATTGTTATGATTAGAATCATGCTTAAGCGGCTTTTATGACTCCATTTTGGCTTTTTAGACAGCCTC
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
369 bp122 aa84452+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MPYTSDLTDKEWEVLEPLVTYIGPCRPRKYTIREVLDAIFYLEKTGCQWRMLPAHFPP*KSVYDLYYRWRRNGKWDLVHDTLRDQVREKLGKQAIPSAAI
MDSRSVKTAQKGGREAMMQQKK

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
441 bp146 aa404844+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

NSTKRGSRGYDAAKKVKGRKQHIIVDTLGLILCVVVHSAHLSDSRGCHLLLIRLFNTFPSIKHIWVDGGYQKGCIMWAYGVLGYTLEVVQRLSNGFHILK
KRWIVERTFAWLSFSRRLSKDYEHNPKSSETHIKIVMIRIMLKRLL

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
761 bp253 aa84844+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MPYTSDLTDKEWEVLEPLVTYIGPCRPRKYTIREVLDAIFYLEKTGCQWRMLPAHFPP*KSVYDLYYRWRRNGKWDLVHDTLRDQVREKLGKQAIPSAAI
MDSRSVKTAQKGGREAMMQQKKVKGRKQHIIVDTLGLILCVVVHSAHLSDSRGCHLLLIRLFNTFPSIKHIWVDGGYQKGCIMWAYGVLGYTLEVVQRLS
NGFHILKKRWIVERTFAWLSFSRRLSKDYEHNPKSSETHIKIVMIRIMLKRLL

 

Blast result :
Comments
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
In the orfA, there is a proposed stop codon readthrough at position 258.
ISCaa9 is present in 15 identical copies in the Candidatus Amoebophilus asiaticus 5a2 genome.
ISCaa9 is 64% aa similar to ISMac15.
References
1] Schmitz-Esser S, Tischler P, Arnold R, Montanaro J, Wagner M, Rattei T, Horn M. (2010) J Bacteriol., 192(4):1045-1057.