ISDsp4
- Family IS3
- Group IS150
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_009455 | ND | Dehalococcoides sp. | Dehalococcoides sp. BAV1 |
DNA section
IS Length : 1305 bp
Ends
IR Length : 21/27
IRL : TGAGGTGGTCCCCAAAAACTAGACAGGTAGCTAAGCGAGAGTTTTGCCCC
IRR : TGAGGTGGACCCCATCAGTAGGACAGAATAGGGACCTTATTAAGAGAGAG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TATTGCCGGA | CAG | AGATCTCGGG | 3 |
DNA sequence
TGAGGTGGTCCCCAAAAACTAGACAGGTAGCTAAGCGAGAGTTTTGCCCCTAAAATATTCAAATAGGAAGGGAGCAGAACATGGAAGAGAACCGCAGGAA
GCACAGTCCATCCTTCAAGGCTAAGGTAGCCCTGGAAGCCATCAAGGGGGAGGAAACGATAGCCCAGTTAGCCAGCCGTTTCGATGTCCACCCCAGTCAG
GTTCACAAGTGGAAGAAAGAACTTGCCGAGGGGGCTGTCGGTATCTTCGGCGATGAGCGTAAACATCAGAAGCCGGACAACCAGCAGTTAGTATCCCAAC
TCTACCAGCAGATTGGCCAACTCAAGGTCGAGCGGGATTTTTTAGAGAACGCTTTGGGTCGCTGAATGTAGAGCGGCGGCGCGAAGCAGTCAACCGCAAC
CATTCTTCGCTATCGGTGGCCAGACAGTGCCTTTTGCTGGATCTTAATCGTTCCAGTTTGTACTACCAGGCGAAGGGGCTAGCGGATAGGGATCTGGTGG
TGATGAAGCTAATAGACCGCCAATATCTGGCGACGCCGTTCTACGGGGCACGCAAGATAGCCTTGGAGTTAAAGAAACAAGCAGGTCTCACGGTCAACCG
GAAACGTGTCCGACGATTGATGCAGCTCATGGGTATCCGGGCCATCTACCGTCGCCCCAGGACCAGTACTCCGGCAACCGGGCATAAGGTCTATCCGTAT
CTGCTGCGCGAGCTGGAAATAACCCGGCCCAATCAAGTGTGGGCGGCGGATATAACGTATATCCCGATGTCACGGGGTTTCCTCTATCTGGTGGCGATAA
TTGACTGGTACAGCCGATATGTCATTTCCTGGCGGCTGTCCAATACGCTGGATGCAGACTTCTGTGTCGCTGCTTTAGAAGAGGCTCTGAGTAAGGGTAC
GCCTGAAATATTCAACACCGATCAAGGCAGTCAGTTCACCAGTGAAGCCTTTACCGCTTTACTGAAAGAGCACAACGTCGGAATCAGCATGGATGGCAAG
GGCAGCTATAACGATAACTTGTTCATTGAGCGGTTATGGCGAACAGTAAAATACGAGGAGGTGTATCTGAAAGCCTATCAGGACGGTCGTGAGGCTAGAA
TCAGTCTGTGTAAGTATTTCCGCTTCTATAACACCAATCGTATCCACCAGTCGCTGGGATACCTGACACCGGTGGAAGTGTATGCTGGTGCTATGGATAA
GACTTGTAACGACGTGGTAAAATCATCAATAACTAAACCCGCAGGAATGGCAGAACTCTCTCTTAATAAGGTCCCTATTCTGTCCTACTGATGGGGTCCA
CCTCA
GCACAGTCCATCCTTCAAGGCTAAGGTAGCCCTGGAAGCCATCAAGGGGGAGGAAACGATAGCCCAGTTAGCCAGCCGTTTCGATGTCCACCCCAGTCAG
GTTCACAAGTGGAAGAAAGAACTTGCCGAGGGGGCTGTCGGTATCTTCGGCGATGAGCGTAAACATCAGAAGCCGGACAACCAGCAGTTAGTATCCCAAC
TCTACCAGCAGATTGGCCAACTCAAGGTCGAGCGGGATTTTTTAGAGAACGCTTTGGGTCGCTGAATGTAGAGCGGCGGCGCGAAGCAGTCAACCGCAAC
CATTCTTCGCTATCGGTGGCCAGACAGTGCCTTTTGCTGGATCTTAATCGTTCCAGTTTGTACTACCAGGCGAAGGGGCTAGCGGATAGGGATCTGGTGG
TGATGAAGCTAATAGACCGCCAATATCTGGCGACGCCGTTCTACGGGGCACGCAAGATAGCCTTGGAGTTAAAGAAACAAGCAGGTCTCACGGTCAACCG
GAAACGTGTCCGACGATTGATGCAGCTCATGGGTATCCGGGCCATCTACCGTCGCCCCAGGACCAGTACTCCGGCAACCGGGCATAAGGTCTATCCGTAT
CTGCTGCGCGAGCTGGAAATAACCCGGCCCAATCAAGTGTGGGCGGCGGATATAACGTATATCCCGATGTCACGGGGTTTCCTCTATCTGGTGGCGATAA
TTGACTGGTACAGCCGATATGTCATTTCCTGGCGGCTGTCCAATACGCTGGATGCAGACTTCTGTGTCGCTGCTTTAGAAGAGGCTCTGAGTAAGGGTAC
GCCTGAAATATTCAACACCGATCAAGGCAGTCAGTTCACCAGTGAAGCCTTTACCGCTTTACTGAAAGAGCACAACGTCGGAATCAGCATGGATGGCAAG
GGCAGCTATAACGATAACTTGTTCATTGAGCGGTTATGGCGAACAGTAAAATACGAGGAGGTGTATCTGAAAGCCTATCAGGACGGTCGTGAGGCTAGAA
TCAGTCTGTGTAAGTATTTCCGCTTCTATAACACCAATCGTATCCACCAGTCGCTGGGATACCTGACACCGGTGGAAGTGTATGCTGGTGCTATGGATAA
GACTTGTAACGACGTGGTAAAATCATCAATAACTAAACCCGCAGGAATGGCAGAACTCTCTCTTAATAAGGTCCCTATTCTGTCCTACTGATGGGGTCCA
CCTCA
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 | |
|---|---|---|---|---|---|
| 285 bp | 94 aa | 81 | 365 | + | No |
Description : First part of the transposase
ORF sequence :
MEENRRKHSPSFKAKVALEAIKGEETIAQLASRFDVHPSQVHKWKKELAEGAVGIFGDERKHQKPDNQQLVSQLYQQIGQLKVERDFLENALGR
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1029 bp | 342 aa | 263 | 1291 | + | No |
Description : Second part of the transposase
ORF sequence :
TSEAGQPAVSIPTLPADWPTQGRAGFFRERFGSLNVERRREAVNRNHSSLSVARQCLLLDLNRSSLYYQAKGLADRDLVVMKLIDRQYLATPFYGARKIA
LELKKQAGLTVNRKRVRRLMQLMGIRAIYRRPRTSTPATGHKVYPYLLRELEITRPNQVWAADITYIPMSRGFLYLVAIIDWYSRYVISWRLSNTLDADF
CVAALEEALSKGTPEIFNTDQGSQFTSEAFTALLKEHNVGISMDGKGSYNDNLFIERLWRTVKYEEVYLKAYQDGREARISLCKYFRFYNTNRIHQSLGY
LTPVEVYAGAMDKTCNDVVKSSITKPAGMAELSLNKVPILSY
LELKKQAGLTVNRKRVRRLMQLMGIRAIYRRPRTSTPATGHKVYPYLLRELEITRPNQVWAADITYIPMSRGFLYLVAIIDWYSRYVISWRLSNTLDADF
CVAALEEALSKGTPEIFNTDQGSQFTSEAFTALLKEHNVGISMDGKGSYNDNLFIERLWRTVKYEEVYLKAYQDGREARISLCKYFRFYNTNRIHQSLGY
LTPVEVYAGAMDKTCNDVVKSSITKPAGMAELSLNKVPILSY
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1211 bp | 403 aa | 81 | 1291 | + | Yes |
Chemistry : DDE
ORF sequence :
MEENRRKHSPSFKAKVALEAIKGEETIAQLASRFDVHPSQVHKWKKELAEGAVGIFGDERKHQKPDNQQLVSQLYQQIGQLKVERDFFRERFGSLNVERR
REAVNRNHSSLSVARQCLLLDLNRSSLYYQAKGLADRDLVVMKLIDRQYLATPFYGARKIALELKKQAGLTVNRKRVRRLMQLMGIRAIYRRPRTSTPAT
GHKVYPYLLRELEITRPNQVWAADITYIPMSRGFLYLVAIIDWYSRYVISWRLSNTLDADFCVAALEEALSKGTPEIFNTDQGSQFTSEAFTALLKEHNV
GISMDGKGSYNDNLFIERLWRTVKYEEVYLKAYQDGREARISLCKYFRFYNTNRIHQSLGYLTPVEVYAGAMDKTCNDVVKSSITKPAGMAELSLNKVPI
LSY
REAVNRNHSSLSVARQCLLLDLNRSSLYYQAKGLADRDLVVMKLIDRQYLATPFYGARKIALELKKQAGLTVNRKRVRRLMQLMGIRAIYRRPRTSTPAT
GHKVYPYLLRELEITRPNQVWAADITYIPMSRGFLYLVAIIDWYSRYVISWRLSNTLDADFCVAALEEALSKGTPEIFNTDQGSQFTSEAFTALLKEHNV
GISMDGKGSYNDNLFIERLWRTVKYEEVYLKAYQDGREARISLCKYFRFYNTNRIHQSLGYLTPVEVYAGAMDKTCNDVVKSSITKPAGMAELSLNKVPI
LSY
Blast result :
Comments
ISDsp4 is 71% aa similar to ISKpn11. The third ORf is a putative ORFAB transposase reconstructed in silico by possible -1 fraemshift.
References
1] ISfinder annotation (2011)
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Pitluck,S., Lowry,S., Clum,A., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Ritalahti,K.M., Loeffler,F. and Richardson,P. (2007) Direct submission GenBank.
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Pitluck,S., Lowry,S., Clum,A., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Ritalahti,K.M., Loeffler,F. and Richardson,P. (2007) Direct submission GenBank.