ISDde2
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_007519 | ND | Desulfovibrio desulfuricans | Desulfovibrio desulfuricans G20 |
DNA section
IS Length : 1318 bp
Ends
IR Length : 21/24
IRL : TGTCCCGTCCTGAAATAGGTTGACAAGTAAGGAGCCTATTTCATGGAAAG
IRR : TGACCCGTCCTAAAATGAGTTGACGTTTTTTAGATTGTTCAAGTTTGGGC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TTTTTGATAG | ACC | ATAACAGTAT | 3 |
DNA sequence
TGTCCCGTCCTGAAATAGGTTGACAAGTAAGGAGCCTATTTCATGGAAAGTGAAAAGAATCAGCATGTAAAGCGCACCCAACGAGACTACACGATGGCCT
TTAAAATATCCGTCGTGACTCAAGTGGAACAAGGCGAAATGACATACAAGCAGGCTCAGAAGATGTATGGTATTCAAGGACGCAGCACTGTGCTTATCTG
GCTTAGAAAGCACGGAACTCTTGATTGGAGCAAGCCTGTGGTACATTCGAGTAAATCGCCAAAAGCTAAAGAGACTCCCGCGCAGCAAATCAGAAGATTG
GAACGGGAGCTGAGGGACGAGAGGCTGAAGAACATGCTTCTCAACGAAATGATTGACATTTCAGACCGCGAATACGGGACTGCCATAAGAAAAAAGTTTA
CCCCCGAGCTGCACGAAATCTTCAACAAAAAGCCAAAGTAAGCTTGGCGGCTTGTTGCAGGCAGCTCGGGGTGAGCCGCCAATCTGTTTATCAGGCCGAA
AAGCGTTTTGAATTCCGAGCTATCCAGCTTCAAGTTGTGAAAGAGCTGGTGCTTGCCGTCAGAGCCAGAATGCCTCGGCTTGGAACCAGAAAGCTGTATT
CGCTGCTGTGCGATGCTATCAGCGCAAAGGGAATCAAGCTTGGGCGCGATGCTTTGTTCGCGTTGTTACGAAAGGAGCACATGCTCATAAGGCACAAACG
AAACTACACAAAAACAACAAATTCAAAGCATTGGCTCAAGAAGCACCCGAACTTGTTTAAAGATATCCGACCATCAAGTCCGGAGCAGGTTTTTGTTAGT
GACATCACATATCTTTCGACAAGAGAGCAGACCTACTACCTCACCTTGGTGACGGATGCTTATAGTAGAAAGATCATGGGACATAGCCTCAATCGGGATC
TTGGAGCTGAAGGGGTGTCCAAGGCACTGGAAAAAGCTGCCAGGAACCGTTTGACTACCAAAGAGGCAATCCACCACTCTGACAGGGGGCTTCAGTACGC
ATCGACCATCTACCAAGACAAGTTGAGTAAGGCAGGGATGCTTTGTTCCATGACTGATGGATACGATTGCTATCAGAACGCTTTGGCTGAACGGGTGAAT
GGCATCCTGAAGCAAGAGTTTCTATTTGTGCCATGCAAAAGTTACGATGAGTTGAAGGCAGTTGTGGACGAGTCGATCGGAATCTATAATACGGAGCGTC
CTCATCTTAGCCTGAATATGAAGACGCCGGAGTATGTACATAAAATGGGCTGTGAGGTTGCCCTCACAGCCCAAACTTGAACAATCTAAAAAACGTCAAC
TCATTTTAGGACGGGTCA
TTAAAATATCCGTCGTGACTCAAGTGGAACAAGGCGAAATGACATACAAGCAGGCTCAGAAGATGTATGGTATTCAAGGACGCAGCACTGTGCTTATCTG
GCTTAGAAAGCACGGAACTCTTGATTGGAGCAAGCCTGTGGTACATTCGAGTAAATCGCCAAAAGCTAAAGAGACTCCCGCGCAGCAAATCAGAAGATTG
GAACGGGAGCTGAGGGACGAGAGGCTGAAGAACATGCTTCTCAACGAAATGATTGACATTTCAGACCGCGAATACGGGACTGCCATAAGAAAAAAGTTTA
CCCCCGAGCTGCACGAAATCTTCAACAAAAAGCCAAAGTAAGCTTGGCGGCTTGTTGCAGGCAGCTCGGGGTGAGCCGCCAATCTGTTTATCAGGCCGAA
AAGCGTTTTGAATTCCGAGCTATCCAGCTTCAAGTTGTGAAAGAGCTGGTGCTTGCCGTCAGAGCCAGAATGCCTCGGCTTGGAACCAGAAAGCTGTATT
CGCTGCTGTGCGATGCTATCAGCGCAAAGGGAATCAAGCTTGGGCGCGATGCTTTGTTCGCGTTGTTACGAAAGGAGCACATGCTCATAAGGCACAAACG
AAACTACACAAAAACAACAAATTCAAAGCATTGGCTCAAGAAGCACCCGAACTTGTTTAAAGATATCCGACCATCAAGTCCGGAGCAGGTTTTTGTTAGT
GACATCACATATCTTTCGACAAGAGAGCAGACCTACTACCTCACCTTGGTGACGGATGCTTATAGTAGAAAGATCATGGGACATAGCCTCAATCGGGATC
TTGGAGCTGAAGGGGTGTCCAAGGCACTGGAAAAAGCTGCCAGGAACCGTTTGACTACCAAAGAGGCAATCCACCACTCTGACAGGGGGCTTCAGTACGC
ATCGACCATCTACCAAGACAAGTTGAGTAAGGCAGGGATGCTTTGTTCCATGACTGATGGATACGATTGCTATCAGAACGCTTTGGCTGAACGGGTGAAT
GGCATCCTGAAGCAAGAGTTTCTATTTGTGCCATGCAAAAGTTACGATGAGTTGAAGGCAGTTGTGGACGAGTCGATCGGAATCTATAATACGGAGCGTC
CTCATCTTAGCCTGAATATGAAGACGCCGGAGTATGTACATAAAATGGGCTGTGAGGTTGCCCTCACAGCCCAAACTTGAACAATCTAAAAAACGTCAAC
TCATTTTAGGACGGGTCA
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 | |
|---|---|---|---|---|---|
| 399 bp | 132 aa | 43 | 441 | + | No |
Description : First part of the transposase
ORF sequence :
MESEKNQHVKRTQRDYTMAFKISVVTQVEQGEMTYKQAQKMYGIQGRSTVLIWLRKHGTLDWSKPVVHSSKSPKAKETPAQQIRRLERELRDERLKNMLL
NEMIDISDREYGTAIRKKFTPELHEIFNKKPK
NEMIDISDREYGTAIRKKFTPELHEIFNKKPK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 924 bp | 307 aa | 357 | 1280 | + | No |
Description : Second part of the transposase
ORF sequence :
HFRPRIRDCHKKKVYPRAARNLQQKAKVSLAACCRQLGVSRQSVYQAEKRFEFRAIQLQVVKELVLAVRARMPRLGTRKLYSLLCDAISAKGIKLGRDAL
FALLRKEHMLIRHKRNYTKTTNSKHWLKKHPNLFKDIRPSSPEQVFVSDITYLSTREQTYYLTLVTDAYSRKIMGHSLNRDLGAEGVSKALEKAARNRLT
TKEAIHHSDRGLQYASTIYQDKLSKAGMLCSMTDGYDCYQNALAERVNGILKQEFLFVPCKSYDELKAVVDESIGIYNTERPHLSLNMKTPEYVHKMGCE
VALTAQT
FALLRKEHMLIRHKRNYTKTTNSKHWLKKHPNLFKDIRPSSPEQVFVSDITYLSTREQTYYLTLVTDAYSRKIMGHSLNRDLGAEGVSKALEKAARNRLT
TKEAIHHSDRGLQYASTIYQDKLSKAGMLCSMTDGYDCYQNALAERVNGILKQEFLFVPCKSYDELKAVVDESIGIYNTERPHLSLNMKTPEYVHKMGCE
VALTAQT
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1238 bp | 412 aa | 43 | 1280 | + | Yes |
Chemistry : DDE
ORF sequence :
MESEKNQHVKRTQRDYTMAFKISVVTQVEQGEMTYKQAQKMYGIQGRSTVLIWLRKHGTLDWSKPVVHSSKSPKAKETPAQQIRRLERELRDERLKNMLL
NEMIDISDREYGTAIRKKVYPRAARNLQQKAKVSLAACCRQLGVSRQSVYQAEKRFEFRAIQLQVVKELVLAVRARMPRLGTRKLYSLLCDAISAKGIKL
GRDALFALLRKEHMLIRHKRNYTKTTNSKHWLKKHPNLFKDIRPSSPEQVFVSDITYLSTREQTYYLTLVTDAYSRKIMGHSLNRDLGAEGVSKALEKAA
RNRLTTKEAIHHSDRGLQYASTIYQDKLSKAGMLCSMTDGYDCYQNALAERVNGILKQEFLFVPCKSYDELKAVVDESIGIYNTERPHLSLNMKTPEYVH
KMGCEVALTAQT
NEMIDISDREYGTAIRKKVYPRAARNLQQKAKVSLAACCRQLGVSRQSVYQAEKRFEFRAIQLQVVKELVLAVRARMPRLGTRKLYSLLCDAISAKGIKL
GRDALFALLRKEHMLIRHKRNYTKTTNSKHWLKKHPNLFKDIRPSSPEQVFVSDITYLSTREQTYYLTLVTDAYSRKIMGHSLNRDLGAEGVSKALEKAA
RNRLTTKEAIHHSDRGLQYASTIYQDKLSKAGMLCSMTDGYDCYQNALAERVNGILKQEFLFVPCKSYDELKAVVDESIGIYNTERPHLSLNMKTPEYVH
KMGCEVALTAQT
Blast result :
Comments
ISDde2 is 70% (ORFA) and 67% (ORFB) aa similar to ISBcen7. The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina,T., Hammon,N., Israni,S., Pitluck,S., Goodwin,L.A., Schmutz,J., Larimer,F., Land,M., Kyrpides,N., Ivanova,N. and Richardson,P.(2005) Direct Submission GenBank