ISCaa3
- Family IS5
- Group ISL2
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_010830 | ND | Candidatus Amoebophilus | Candidatus Amoebophilus asiaticus 5a2 |
DNA section
IS Length : 911 bp
Ends
IR Length : 17/20
IRL : AGAGATCTTCTGAAACCTAAGGAATAAGCATAAATGTATAAATTAGGGAT
IRR : AGAGTTCTTCCGAAACTTAACATAAAAGTTCATAGTTATAAATTCCAGCA
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
TTTACAATTC | ATT | GAGCATATTA | 3 |
TATAGTTAGT | ATT | GTATAAACAG | 3 |
AAAAATTTCC | ATT | GGAGTATTTT | 3 |
TGTCCAAGCA | ATT | TAAAAAATTA | 3 |
TAAAATCTAT | AGT | ATTCTTACAA | 3 |
GCCAACATAT | ATT | CTAGAAGGTA | 3 |
TTTGTATTTG | ATT | GTAACAACCC | 3 |
GGAAATAGAC | AAT | TGCTCAGATA | 3 |
TATCGGCATT | AATATTTTTA | 0 | |
ATTGTTCAAT | ATTATTATTT | 0 | |
TTATAATATT | AATGCCACAT | 0 |
DNA sequence
AGAGATCTTCTGAAACCTAAGGAATAAGCATAAATGTATAAATTAGGGATAAAAAAACAGAAAGATTAATGGAAAACAGTCATCTAAAAACCTTAAAGCC
AGAAGAATTCCGTCGCTTAACAGGCGTAAAGGCTGAGACCTTTGCCAAAATGTTAGCTATCATACAGAAAGCCATTCAAACAAAGAAAGCTAAAGTAGGG
CGGCCTAATAAACTGAGTTGTGAACAAATGTTTTTAATGACTTTAGAATATTTAAGAGAATACCGCACATACTTCCATATTTCAAAAAGTTATGGAATAA
GTGAGAGTAATTGCTATTATACCATCCGTTTTATTGAAGAGGCGTTAATTAAAAGTGGTCAATTCACTTTACCAGGCCGTAAAGCATTGTTAAAAAGCGA
TATGGAATATGCAGTAATCTTAATAGATGCTACAGAGAGCCCCATTGAGCGGCCTAAAAAAAGCAGCGATATTACTACTCAGGTAAAAAGAAACGACATA
CACTAAAGACGCAACTGGTTGTCGATAAGCAAACGCGAGCCATAATATGTAGTAGTTTTTCAAATGGAAAGCGGCATGACTTTCGCTTGTTTAAGGAATC
TAAGGTACATATAAGCCAGCATAGTCAAGCCATAGTAGATACAGGCTATCAAGGGTTAAAGAGGCTACATGACAAATCGCTTATGCCTAAAAAACGCAGT
AAAAAGCATTCTTTGACCAAAGCCGATAAGAGGAGTAATCAGCAATTAGCCAGCCAAAGGGTGCTTAGCGAGCATATAATTGGTATGCTCAAGCGGTTTA
AAATTTTAGCGGAGCGTTACAGAAATAGGAGAAAAAGATTTGGGCTACGCTTTAATCTTATTGCTGGAATTTATAACTATGAACTTTTATGTTAAGTTTC
GGAAGAACTCT
AGAAGAATTCCGTCGCTTAACAGGCGTAAAGGCTGAGACCTTTGCCAAAATGTTAGCTATCATACAGAAAGCCATTCAAACAAAGAAAGCTAAAGTAGGG
CGGCCTAATAAACTGAGTTGTGAACAAATGTTTTTAATGACTTTAGAATATTTAAGAGAATACCGCACATACTTCCATATTTCAAAAAGTTATGGAATAA
GTGAGAGTAATTGCTATTATACCATCCGTTTTATTGAAGAGGCGTTAATTAAAAGTGGTCAATTCACTTTACCAGGCCGTAAAGCATTGTTAAAAAGCGA
TATGGAATATGCAGTAATCTTAATAGATGCTACAGAGAGCCCCATTGAGCGGCCTAAAAAAAGCAGCGATATTACTACTCAGGTAAAAAGAAACGACATA
CACTAAAGACGCAACTGGTTGTCGATAAGCAAACGCGAGCCATAATATGTAGTAGTTTTTCAAATGGAAAGCGGCATGACTTTCGCTTGTTTAAGGAATC
TAAGGTACATATAAGCCAGCATAGTCAAGCCATAGTAGATACAGGCTATCAAGGGTTAAAGAGGCTACATGACAAATCGCTTATGCCTAAAAAACGCAGT
AAAAAGCATTCTTTGACCAAAGCCGATAAGAGGAGTAATCAGCAATTAGCCAGCCAAAGGGTGCTTAGCGAGCATATAATTGGTATGCTCAAGCGGTTTA
AAATTTTAGCGGAGCGTTACAGAAATAGGAGAAAAAGATTTGGGCTACGCTTTAATCTTATTGCTGGAATTTATAACTATGAACTTTTATGTTAAGTTTC
GGAAGAACTCT
Recoding section
- Recoding by frameshift
- Frame
- Type
- Experimentally demonstrated
Stimulators :
- Shine-Dalgarno sequence :
- Secondary structure :
Recoding motif :
Protein section
ORF number : 3
ORF 1
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
438 bp | 145 aa | 69 | 506 | + | No |
Description : First part of the transposase
ORF sequence :
MENSHLKTLKPEEFRRLTGVKAETFAKMLAIIQKAIQTKKAKVGRPNKLSCEQMFLMTLEYLREYRTYFHISKSYGISESNCYYTIRFIEEALIKSGQFT
LPGRKALLKSDMEYAVILIDATESPIERPKKSSDITTQVKRNDIH
LPGRKALLKSDMEYAVILIDATESPIERPKKSSDITTQVKRNDIH
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
438 bp | 145 aa | 458 | 895 | + | No |
Description : Second part of the transposase
ORF sequence :
KKQRYYYSGKKKRHTLKTQLVVDKQTRAIICSSFSNGKRHDFRLFKESKVHISQHSQAIVDTGYQGLKRLHDKSLMPKKRSKKHSLTKADKRSNQQLASQ
RVLSEHIIGMLKRFKILAERYRNRRKRFGLRFNLIAGIYNYELLC
RVLSEHIIGMLKRFKILAERYRNRRKRFGLRFNLIAGIYNYELLC
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
827 bp | 275 aa | 69 | 895 | + | Yes |
Chemistry : DDE
ORF sequence :
MENSHLKTLKPEEFRRLTGVKAETFAKMLAIIQKAIQTKKAKVGRPNKLSCEQMFLMTLEYLREYRTYFHISKSYGISESNCYYTIRFIEEALIKSGQFT
LPGRKALLKSDMEYAVILIDATESPIERPKKKQRYYYSGKKKRHTLKTQLVVDKQTRAIICSSFSNGKRHDFRLFKESKVHISQHSQAIVDTGYQGLKRL
HDKSLMPKKRSKKHSLTKADKRSNQQLASQRVLSEHIIGMLKRFKILAERYRNRRKRFGLRFNLIAGIYNYELLC
LPGRKALLKSDMEYAVILIDATESPIERPKKKQRYYYSGKKKRHTLKTQLVVDKQTRAIICSSFSNGKRHDFRLFKESKVHISQHSQAIVDTGYQGLKRL
HDKSLMPKKRSKKHSLTKADKRSNQQLASQRVLSEHIIGMLKRFKILAERYRNRRKRFGLRFNLIAGIYNYELLC
Blast result :
Comments
ISCaa3 is 81% aa similar to ISCaa2.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
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.
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.