ISRpa2
- Family IS3
- Group IS407
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_005296 | ND | Rhodopseudomonas palustris | Rhodopseudomonas palustris CGA009 |
DNA section
IS Length : 1265 bp
Ends
IR Length : 36/46
IRL : TGACCTTGCCCCTCGGGCTTAATCCAGTTTGAAGTTCGTTCTGGCCCTAA
IRR : TGACCTTGCCCCCAAGTTTTATCCAGGTCTGAGTTCGTTCGGGTGGTTAG
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
GACTTCACCT | CGTC | GGCCGGGTTT | 4 |
DNA sequence
TGACCTTGCCCCTCGGGCTTAATCCAGTTTGAAGTTCGTTCTGGCCCTAACGAGGACCAGAGCATGAAGCGCAGCCGCTTTTCGGAAGAGCAGATCATCG
GGATTTTGAAGGAGCACGAGGCTGGTGTTTCGGTCGCCGATCTTTGCCGCAAGCACGGCGTCAGCGACGCCAGCATCTATAAGTGGAAGGCGAAGTTTGG
CGGGATGGACGTCTCGGAGGCCAAGCGATTGAAGTCGCTGGAGGACGAGAACACCCGGCTGAAGCGGTTGCTGGCCGACGCCATGCTGGACAATGCAGCC
CTGAAGGATCTTCTGGGAAAGAAGTGGTGACGCCCGCGGCCAAGCGGAAAGCTGTCGCGCATCTGCAAACTGCATTCGAGATGAGCGAACGGCGGGCGTG
TAAAGCCATCGGCTGCTGCCGCATGACAGTCAGATATCAGACGAGCCGGAGCGATGATGCCGGGCTGCGCCAACGTATGAGGGCGATCGCCCATGAGCGC
CGGCGCTTTGGCTATCGGCGCCTCCACGTCCTGCTCAAGCGTGAGGGCTACCTGGTCAATCACAAGAAGCTGTTCCGGCTGTACCGTGAGGAGAAGCTCA
CAGTGCGCCGCAGGGGTGGCCGCAAACGGGCCCTCGGCACACGAGCTCCCATGACAGTGCCGGTGCTCCCGAATGATCGCTGGTCGCTCGACTTCGTGTC
GGATCAGATGACCGATGGTCGACGCTTCCGCATTCTGACTGTGGTCGACGACTGCACCCGCGAGTGCCTGGCGCTGGTGGTCGACACCTCGCTCTCGGGC
GCCCGGGTCGCACGAGAACTGGACCGGCTGGTTGCCGAGCGCGGCAAGCCCAAGATGGTGGTGAGCGACAATGGCAGCGAGTTCACCAGCAATGCCATCC
TGACATGGGCCGATCAGAGCCGTATCGCCTGGCACTACATTGCGCCGGGAAAACCCATGCAAAACGCCTTCATCGAGAGCTTCAACGGCCGCCTGCGGGA
TGAACTGCTGAACGAAACGCTGTTCACCTCGCTGGCCCAGGCCCGCGTAGCGCTCCGGTGCTGGCGGGCCGACTACAATGATGCACGACCGCACTCACAG
CTCGGGTGGCGGACGCCATCCGAGTTCGCCGCCACCTGCAATCCGCGTCGGGATCTGGCGCTGCGCTATATCGAAAGCTCCACGCCAGCTCCCGCCACCG
CCCACATGGGCCCATCTAACCACCCGAACGAACTCAGACCTGGATAAAACTTGGGGGCAAGGTCA
GGATTTTGAAGGAGCACGAGGCTGGTGTTTCGGTCGCCGATCTTTGCCGCAAGCACGGCGTCAGCGACGCCAGCATCTATAAGTGGAAGGCGAAGTTTGG
CGGGATGGACGTCTCGGAGGCCAAGCGATTGAAGTCGCTGGAGGACGAGAACACCCGGCTGAAGCGGTTGCTGGCCGACGCCATGCTGGACAATGCAGCC
CTGAAGGATCTTCTGGGAAAGAAGTGGTGACGCCCGCGGCCAAGCGGAAAGCTGTCGCGCATCTGCAAACTGCATTCGAGATGAGCGAACGGCGGGCGTG
TAAAGCCATCGGCTGCTGCCGCATGACAGTCAGATATCAGACGAGCCGGAGCGATGATGCCGGGCTGCGCCAACGTATGAGGGCGATCGCCCATGAGCGC
CGGCGCTTTGGCTATCGGCGCCTCCACGTCCTGCTCAAGCGTGAGGGCTACCTGGTCAATCACAAGAAGCTGTTCCGGCTGTACCGTGAGGAGAAGCTCA
CAGTGCGCCGCAGGGGTGGCCGCAAACGGGCCCTCGGCACACGAGCTCCCATGACAGTGCCGGTGCTCCCGAATGATCGCTGGTCGCTCGACTTCGTGTC
GGATCAGATGACCGATGGTCGACGCTTCCGCATTCTGACTGTGGTCGACGACTGCACCCGCGAGTGCCTGGCGCTGGTGGTCGACACCTCGCTCTCGGGC
GCCCGGGTCGCACGAGAACTGGACCGGCTGGTTGCCGAGCGCGGCAAGCCCAAGATGGTGGTGAGCGACAATGGCAGCGAGTTCACCAGCAATGCCATCC
TGACATGGGCCGATCAGAGCCGTATCGCCTGGCACTACATTGCGCCGGGAAAACCCATGCAAAACGCCTTCATCGAGAGCTTCAACGGCCGCCTGCGGGA
TGAACTGCTGAACGAAACGCTGTTCACCTCGCTGGCCCAGGCCCGCGTAGCGCTCCGGTGCTGGCGGGCCGACTACAATGATGCACGACCGCACTCACAG
CTCGGGTGGCGGACGCCATCCGAGTTCGCCGCCACCTGCAATCCGCGTCGGGATCTGGCGCTGCGCTATATCGAAAGCTCCACGCCAGCTCCCGCCACCG
CCCACATGGGCCCATCTAACCACCCGAACGAACTCAGACCTGGATAAAACTTGGGGGCAAGGTCA
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 | |
---|---|---|---|---|---|
267 bp | 88 aa | 64 | 330 | + | No |
Description : First part of the transposase
ORF sequence :
MKRSRFSEEQIIGILKEHEAGVSVADLCRKHGVSDASIYKWKAKFGGMDVSEAKRLKSLEDENTRLKRLLADAMLDNAALKDLLGKKW
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1065 bp | 354 aa | 183 | 1247 | + | No |
Description : Second part of the transposase
ORF sequence :
VEGEVWRDGRLGGQAIEVAGGREHPAEAVAGRRHAGQCSPEGSSGKEVVTPAAKRKAVAHLQTAFEMSERRACKAIGCCRMTVRYQTSRSDDAGLRQRMR
AIAHERRRFGYRRLHVLLKREGYLVNHKKLFRLYREEKLTVRRRGGRKRALGTRAPMTVPVLPNDRWSLDFVSDQMTDGRRFRILTVVDDCTRECLALVV
DTSLSGARVARELDRLVAERGKPKMVVSDNGSEFTSNAILTWADQSRIAWHYIAPGKPMQNAFIESFNGRLRDELLNETLFTSLAQARVALRCWRADYND
ARPHSQLGWRTPSEFAATCNPRRDLALRYIESSTPAPATAHMGPSNHPNELRPG
AIAHERRRFGYRRLHVLLKREGYLVNHKKLFRLYREEKLTVRRRGGRKRALGTRAPMTVPVLPNDRWSLDFVSDQMTDGRRFRILTVVDDCTRECLALVV
DTSLSGARVARELDRLVAERGKPKMVVSDNGSEFTSNAILTWADQSRIAWHYIAPGKPMQNAFIESFNGRLRDELLNETLFTSLAQARVALRCWRADYND
ARPHSQLGWRTPSEFAATCNPRRDLALRYIESSTPAPATAHMGPSNHPNELRPG
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1184 bp | 394 aa | 64 | 1247 | + | Yes |
Chemistry : DDE
ORF sequence :
MKRSRFSEEQIIGILKEHEAGVSVADLCRKHGVSDASIYKWKAKFGGMDVSEAKRLKSLEDENTRLKRLLADAMLDNAALKDLLGKEVVTPAAKRKAVAH
LQTAFEMSERRACKAIGCCRMTVRYQTSRSDDAGLRQRMRAIAHERRRFGYRRLHVLLKREGYLVNHKKLFRLYREEKLTVRRRGGRKRALGTRAPMTVP
VLPNDRWSLDFVSDQMTDGRRFRILTVVDDCTRECLALVVDTSLSGARVARELDRLVAERGKPKMVVSDNGSEFTSNAILTWADQSRIAWHYIAPGKPMQ
NAFIESFNGRLRDELLNETLFTSLAQARVALRCWRADYNDARPHSQLGWRTPSEFAATCNPRRDLALRYIESSTPAPATAHMGPSNHPNELRPG
LQTAFEMSERRACKAIGCCRMTVRYQTSRSDDAGLRQRMRAIAHERRRFGYRRLHVLLKREGYLVNHKKLFRLYREEKLTVRRRGGRKRALGTRAPMTVP
VLPNDRWSLDFVSDQMTDGRRFRILTVVDDCTRECLALVVDTSLSGARVARELDRLVAERGKPKMVVSDNGSEFTSNAILTWADQSRIAWHYIAPGKPMQ
NAFIESFNGRLRDELLNETLFTSLAQARVALRCWRADYNDARPHSQLGWRTPSEFAATCNPRRDLALRYIESSTPAPATAHMGPSNHPNELRPG
Blast result :
Comments
ISRpa2 is 93 % (ORFA) aa similar to ISR1 and 82% (ORFB) aa similar to ISRle4. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Larimer,F.W., Chain,P., Hauser,L., Lamerdin,J., Malfatti,S., Do,L., Land,M.L., Pelletier,D.A., Beatty,J.T., Lang,A.S., Tabita,F.R., Gibson,J.L., Hanson,T.E., Bobst,C., Torres,J.L., Peres,C., Harrison,F.H., Gibson,J. and Harwood,C.S. Nat. (2004) Biotechnol. 22 (1), 55-61