ISCaa13

  • Family IS5
  • Group IS427
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_010830 ND Candidatus Amoebophilus
Candidatus Amoebophilus asiaticus 5a2
DNA section
IS Length : 852 bp

Ends


IR Length : 14/17

IRL : GGGTGTGTCAAGAATTAAAATATAAGACAAATTAGGTATAAAAGAGTAAG
IRR : GGGCGTGTCAACAAATAGCCCACAAAGAAGAAGCAGCCAAATAAATACCA

Insertion site


Left flankDirect repeatRight flankDR Length
TATTGTTTACTAGTTAACCTAA2
TTAAAATAATTAGTTTAAGTAT2

DNA sequence

GGGTGTGTCAAGAATTAAAATATAAGACAAATTAGGTATAAAAGAGTAAGTTGGCTGTATGCAGAGCTAAAAATAGGAGGAATATATGCGACGCTATGCA
CTAACAGACCAGCAATGGGAAAAGATAAAAGATCTCTTGCCAGGCCGATCAGGCACAGTAGGACCGACAGCCAAGGATAATAGACTCTTTGTTGAAGCAG
TCTTATACCGTTACCGTGCTGGTATACCCTGGCGTGATTTACCTGAGCGCTTTGGAGACTTTAGAGTGGTTCATATCCGGCATGCTAGATGGAGTAAAAA
AGGTGTATGGCAAAAAGTATTTGAAGTGCTTTTACAAGAGAGCGATAATGCATATTATATGCTTGATGCTACTATTGTTAAGGCCCAACAGCATAGTGCA
GGCGCTAAAAAAAAGCCTTAACAAACAAGCGATCGGCCGTAGCCGAGCAGGATTAAGCACAAAAATACATACATTATGTGATGGTAAAGGAAGGCCTATT
GCCTTTCACCTAACAGGTGGAGAGGCACATGATTTGCAAGGAGCCGATGCATTACTGGAAAAAGTAAATGCCCCAGCTTTATTGGCTGATAAGGCTTATT
ATGCACAAAAGAGAGTATTAGCTAGATTACAAAAGAGCAATTGTGTAGCAGTCATACCATCAAAAGCCAATCATAAAAACAAGCGATCTTATGATAAGCA
GCTCTATAAATGGTGCTATTTGATCGAGCATTTCTTTGCTTACTTAAAGCAATATCGAGCTATAGCCACGCGCTATGATAATCTAGCGGTCAACTTTTTA
GGTGGTATTTATTTGGCTGCTTCTTCTTTGTGGGCTATTTGTTGACACGCCC
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
336 bp111 aa86421+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MRRYALTDQQWEKIKDLLPGRSGTVGPTAKDNRLFVEAVLYRYRAGIPWRDLPERFGDFRVVHIRHARWSKKGVWQKVFEVLLQESDNAYYMLDATIVKA
QQHSAGAKKKP

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
684 bp227 aa162845+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

DRQPRIIDSLLKQSYTVTVLVYPGVIYLSALETLEWFISGMLDGVKKVYGKKYLKCFYKRAIMHIICLMLLLLRPNSIVQALKKSLNKQAIGRSRAGLST
KIHTLCDGKGRPIAFHLTGGEAHDLQGADALLEKVNAPALLADKAYYAQKRVLARLQKSNCVAVIPSKANHKNKRSYDKQLYKWCYLIEHFFAYLKQYRA
IATRYDNLAVNFLGGIYLAASSLWAIC

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
760 bp252 aa86845+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MRRYALTDQQWEKIKDLLPGRSGTVGPTAKDNRLFVEAVLYRYRAGIPWRDLPERFGDFRVVHIRHARWSKKGVWQKVFEVLLQESDNAYYMLDATIVKA
QQHSAGAKKPLNKQAIGRSRAGLSTKIHTLCDGKGRPIAFHLTGGEAHDLQGADALLEKVNAPALLADKAYYAQKRVLARLQKSNCVAVIPSKANHKNKR
SYDKQLYKWCYLIEHFFAYLKQYRAIATRYDNLAVNFLGGIYLAASSLWAIC

 

Blast result :
Comments
ISCaa13 is 70% aa similar to ISAli12B.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible +1 frameshift.
ISCaa13 is present in two copies in the Candidatus Amoebophilus asiaticus 5a2 genome.
References
1] Schmitz-Esser S, Tischler P, Arnold R, Montanaro J, Wagner M, Rattei T, Horn M. (2010) J Bacteriol., 192(4):1045-1057.