ISCaa8

  • 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 : 891 bp

Ends


IR Length : 18/21

IRL : GAGCCTGTTCAAGATCTTTGTTCATTAAGTTAATATTTATTAGATTAGAG
IRR : GAGTCTGTTCATAATCTTTGTAGGCATATTCTTAGAAAAGCAAGCACCAC

Insertion site


Left flankDirect repeatRight flankDR Length
TCTATTATTTTAAGAAATGCGT2
GACGGTTTGTTAAGATTCTAAA2
GAGTAAGTTCTTACAATAAATCG3
AACAAGTTCTTAAGGCTTTTTG2
TTATTTCCCTTAAGGCATCAAA2
TGTAAATTCTTAAGGATAAGAA2

DNA sequence

GAGCCTGTTCAAGATCTTTGTTCATTAAGTTAATATTTATTAGATTAGAGAGGAAACTAGTCAATAACTTGATAAAAAAGGGACTTATCTATGACTCAAG
AGTATTCTACTAATATTAATAGAGAACAATTTGAAGTTATACGCCCTATTTTGGAAGCAGCCCGAAAAAAGACTAAACCTCGCCAGGTAGATTTATATGA
GGTATTCTCTGGATTACTGTATCTGCTCAAGACAGGCTGCCAATGGAGAATGTTGCCTAAAGATTTTCCTAAATGGCGTACGGTACATGCTTATTTTCAG
ATATGGAGTGAAAAGCAAGAAAATGGCATAAGCTTTCTAGAAGAAGTATTAAAAAAATATGGTTGCTCGTCTGAGGAAGCAAGCAGGTAAAGCAGCCCAA
ACGAGCCTGATTATAGTAGATGCGCAAAGCATAAAGAATACAGATACAGCCAAAGAGAAAGGCTATGATGGAGCTAAAAAGATAAACGGGATCAAGCGCC
ACATAGCCGTAGACAGCCAAGGCTTACCGCATGGGATATATGTTACACGGGCTAGTGAAACAGATAGAGATGGAGCAGTAACTATGCTTAAAGATCACAA
AGAGCAATTAGCTAAGGTAAAGAAGGTGCTCGTAGATGGAGGCTATAGTGGAGAAGTGTTTGCCAACCAAGTAAAAGAAGTCCTTCAGGGAGCGGAAGTA
GAAGTAGCTAAAAGGAGCGAATTGCATCGATTTAAGGTAATACCTAAGCGATGGATAGTGGAGCGAAGTTTTGGCTGGCTGGAAAAATGCCGACGCCTAT
GGAAAAACTGTGAGAGAAGATTAACTACAAGCTTACAAATGGTGGTGCTTGCTTTTCTAAGAATATGCCTACAAAGATTATGAACAGACTC
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
300 bp99 aa91390+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MTQEYSTNINREQFEVIRPILEAARKKTKPRQVDLYEVFSGLLYLLKTGCQWRMLPKDFPKWRTVHAYFQIWSEKQENGISFLEEVLKKYGCSSEEASR

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
531 bp176 aa353883+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

KNMVARLRKQAGKAAQTSLIIVDAQSIKNTDTAKEKGYDGAKKINGIKRHIAVDSQGLPHGIYVTRASETDRDGAVTMLKDHKEQLAKVKKVLVDGGYSG
EVFANQVKEVLQGAEVEVAKRSELHRFKVIPKRWIVERSFGWLEKCRRLWKNCERRLTTSLQMVVLAFLRICLQRL

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
793 bp263 aa91883+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MTQEYSTNINREQFEVIRPILEAARKKTKPRQVDLYEVFSGLLYLLKTGCQWRMLPKDFPKWRTVHAYFQIWSEKQENGISFLEEVLKNMVARLRKQAGK
AAQTSLIIVDAQSIKNTDTAKEKGYDGAKKINGIKRHIAVDSQGLPHGIYVTRASETDRDGAVTMLKDHKEQLAKVKKVLVDGGYSGEVFANQVKEVLQG
AEVEVAKRSELHRFKVIPKRWIVERSFGWLEKCRRLWKNCERRLTTSLQMVVLAFLRICLQRL

 

Blast result :
Comments
ISCaa8 (orfAB) is 77% aa similar to ISCARN82.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible +1 frameshift.
ISCaa8 is present in six 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.