ISCaa2

  • Family IS5
  • Group ISL2
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_010830 ND Candidatus Amoebophilus
Candidatus Amoebophilus asiaticus 5a2
DNA section
IS Length : 908 bp

Ends


IR Length : 16/17

IRL : AGACTTCTTTCGAAACTAGGATTTACAAAAAATGAGTAAATTGGGTGTAA
IRR : AGACCTCTTTCGAAACTTAAATTGAGAGTTCATAATTATGGATTGCGGCT

Insertion site


Left flankDirect repeatRight flankDR Length
TCCATTTATCAATGTCTTTGTTA3
ATAGGTAGTTATTAAATAAAATA3
TTTTTAAATAATTTTACGATTT2

DNA sequence

AGACTTCTTTCGAAACTAGGATTTACAAAAAATGAGTAAATTGGGTGTAAAAAGAGGCAATAAGCATGAAATATGAGCAAACAAAGGAGTTAGAAGAAGA
GAAATTCCGTCGTTTAACAGGTATTAAACGTCCTACATTTGACAAAATGATAGCTATACTTAACCAAGCTAACATACAGAAAAGGACCCGCGGTGGGCGT
AAGCATAAACTTTGTATGGAAGACCAGTTGTTAATGGCTTTAGAATATCTAAGGGAATACCGCACTTATTTTCATATAGCACAAAGTTATGGCATTAGTG
AGAGTAGTGCATACAAGGGAATAAAGTGGATAGAAAACACTTTAATCAAGCATCCAGCCTTTGCTCTGCCTGGTAGGAAAGCCCTACGCAAAAGTGAGTG
TGGGTATGAGGTTATACTAATAGATGCTACAGAAAGCCCTATTGAGCGACCTAAAAAAAGCAAAGACACTTTTACTCTGGAAAAAGAAAAAGGCATACAC
TCAAAAGTCAACTTATTGTCGACAAGCAAAGCAAAATAGTAATATGCACCAGTTTTACAAATGGAAAACGGCATGACTTTCGCTTGTTCAAAGAGTCTAA
AGTTCGCATTAATCAACAAATAGAAGTAATAGCAGATACAGGCTATCAGGGTTTAAACAAACTACATGCGAAAACAAAACTTCCTAAAAAGCGAACTCGC
AAGCACCCTTTAACTAAACAGGAGAGAAGAAGCAATGCCCTATTAGCCAGCCAAAGGGTACTTAATGAAAATGTTATCGCCATGCTTAAACGCTTTAAAA
TCCTTTCTGATAGATATCGTAATAGAAGAAAACGCTTTGGCCTTAGGTTTAATTTAATAGCCGCAATCCATAATTATGAACTCTCAATTTAAGTTTCGAA
AGAGGTCT
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
474 bp157 aa66539+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKYEQTKELEEEKFRRLTGIKRPTFDKMIAILNQANIQKRTRGGRKHKLCMEDQLLMALEYLREYRTYFHIAQSYGISESSAYKGIKWIENTLIKHPAFA
LPGRKALRKSECGYEVILIDATESPIERPKKSKDTFTLEKEKGIHSKVNLLSTSKAK

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
438 bp145 aa455892+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

KKQRHFYSGKRKRHTLKSQLIVDKQSKIVICTSFTNGKRHDFRLFKESKVRINQQIEVIADTGYQGLNKLHAKTKLPKKRTRKHPLTKQERRSNALLASQ
RVLNENVIAMLKRFKILSDRYRNRRKRFGLRFNLIAAIHNYELSI

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
827 bp275 aa66892+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKYEQTKELEEEKFRRLTGIKRPTFDKMIAILNQANIQKRTRGGRKHKLCMEDQLLMALEYLREYRTYFHIAQSYGISESSAYKGIKWIENTLIKHPAFA
LPGRKALRKSECGYEVILIDATESPIERPKKKQRHFYSGKRKRHTLKSQLIVDKQSKIVICTSFTNGKRHDFRLFKESKVRINQQIEVIADTGYQGLNKL
HAKTKLPKKRTRKHPLTKQERRSNALLASQRVLNENVIAMLKRFKILSDRYRNRRKRFGLRFNLIAAIHNYELSI

 

Blast result :
Comments
ISCaa2 is 69% aa similar to IS702.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
References
1] ISfinder annotation (2010).
2] Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Pitluck,S., Chain,P., Malfatti,S., Shin,M., Vergez,L., Lang,D., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Ovchinnikova,G., Horn,M. and Richardson,P. (2008) Direct submission Genbank.