ISAav4
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_008752 | ND | Acidovorax avenae | Acidovorax avenae subsp. citrulli AAC00-1 |
DNA section
IS Length : 1308 bp
Ends
IR Length : 20/24
IRL : TGAAGTTGCCCCGGTTTGACGGACACCTTACGCTGTAGAGCAAGGAGTTC
IRR : TGAAGTTGTCCCGCTTCCACGGACGGTTATCGGCTTGATTCTCAAGCCGG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TCATCCACGT | GGG | AGTTCCCAGG | 3 |
DNA sequence
TGAAGTTGCCCCGGTTTGACGGACACCTTACGCTGTAGAGCAAGGAGTTCGAAATGGGCAAGACAAGGCCGCCGTATCCGGCGGAGTTCCGAGAGCAGAT
AGTGGAGTTGGTGCGAGCTGGGAGAACCCCAGCAGAGCTGGCTCGCGAGTTTGACGTGACCGCGCAGACCATTGCCAACTGGGTGGGTGCCGCTGGTGGT
CAAGCGTCGCGAAGCCAGGCGACGGCAGGTGCGCTCACCGGGAGCGAACGCGAGGAGCTGGCCAGGCTGCGCCGGCAGTTGCGGCAAGTGCAGATGGAGC
GCGACATCCTGGCAAAGGCTACGGCCTGGTTCGCCGCCAAGAGCGACAAGACGTTCACGCCGTCTTCGAACTCGTGAACGCGAACCAGGCCGACTTCCCC
GTTCGGACGATGTGCCGGGTGCTGGGCGTGTCCCACAGCGGCTTCTACGACTGGCGGCACCGAGCGCCAAGCCAGCGCGCGATGGAGGACATGGTGCTCA
CCGAGCGGATCAGGCAGGTGCACGCCGAGTCCCGCGAGACCTACGGCCAGCCACGCGTGCGGGCCGAGTTGGCCGCACAGGGCGTGCGCGTCGCAGGCAA
GCGGATCGCCCGCCTCATGCGCCAGGCAGGCCTGCAGGGGATCAGCAAACGACGGGCGACCACGGTGACCACGCGGCGTGACCCACGCGAGCGTCCAGCG
GCGGACCTCGTGATGCGACGCTTCCGCGCCGAGCGAGCGAACCAGCTGTGGGTGGCCGACATGACCTATGTGCCGACGTGGGCAGGCTTCGTCTACCTGG
CGGTGGTGATGGACGTCTTCAGCCGGCGCATCGTCGGCTGGTCGATGGGAGAGCGCATGACCGCGCAACTCGTGCTGGCGGCGCTGAACATGGCATTGGC
CCGACGCAAGCCCCAGGGTGTCATCCACCACTCGGACCAGGGCAGCCAGTACACCAGCCTGGCGTTCGGGCAACGCTGCGCCGAGATGGGTGTGCGCCCG
TCGATGGGCAGTGTGGGTGACGCGTACGACAACGCCATGGCCGAGAGCTTCTTCGCCACGCTCGAATGCGAGCTGATCGAGCGGCGCAGCTTCCGATCGA
AGGCGGAGGCGAAGGCCGCGGTGTTCAGCTACATCGAGGGCTGGTACAACCCGCGCCGACGCCACTCCGCGCTGAGCTACCACTCACCCGTGGAGTTCGA
GCGCCGCGTCGTCGCCGAGGCGTGTCAGGCAACGGAGATCAACGAGAGAGACCAAATCCCGGCTTGAGAATCAAGCCGATAACCGTCCGTGGAAGCGGGA
CAACTTCA
AGTGGAGTTGGTGCGAGCTGGGAGAACCCCAGCAGAGCTGGCTCGCGAGTTTGACGTGACCGCGCAGACCATTGCCAACTGGGTGGGTGCCGCTGGTGGT
CAAGCGTCGCGAAGCCAGGCGACGGCAGGTGCGCTCACCGGGAGCGAACGCGAGGAGCTGGCCAGGCTGCGCCGGCAGTTGCGGCAAGTGCAGATGGAGC
GCGACATCCTGGCAAAGGCTACGGCCTGGTTCGCCGCCAAGAGCGACAAGACGTTCACGCCGTCTTCGAACTCGTGAACGCGAACCAGGCCGACTTCCCC
GTTCGGACGATGTGCCGGGTGCTGGGCGTGTCCCACAGCGGCTTCTACGACTGGCGGCACCGAGCGCCAAGCCAGCGCGCGATGGAGGACATGGTGCTCA
CCGAGCGGATCAGGCAGGTGCACGCCGAGTCCCGCGAGACCTACGGCCAGCCACGCGTGCGGGCCGAGTTGGCCGCACAGGGCGTGCGCGTCGCAGGCAA
GCGGATCGCCCGCCTCATGCGCCAGGCAGGCCTGCAGGGGATCAGCAAACGACGGGCGACCACGGTGACCACGCGGCGTGACCCACGCGAGCGTCCAGCG
GCGGACCTCGTGATGCGACGCTTCCGCGCCGAGCGAGCGAACCAGCTGTGGGTGGCCGACATGACCTATGTGCCGACGTGGGCAGGCTTCGTCTACCTGG
CGGTGGTGATGGACGTCTTCAGCCGGCGCATCGTCGGCTGGTCGATGGGAGAGCGCATGACCGCGCAACTCGTGCTGGCGGCGCTGAACATGGCATTGGC
CCGACGCAAGCCCCAGGGTGTCATCCACCACTCGGACCAGGGCAGCCAGTACACCAGCCTGGCGTTCGGGCAACGCTGCGCCGAGATGGGTGTGCGCCCG
TCGATGGGCAGTGTGGGTGACGCGTACGACAACGCCATGGCCGAGAGCTTCTTCGCCACGCTCGAATGCGAGCTGATCGAGCGGCGCAGCTTCCGATCGA
AGGCGGAGGCGAAGGCCGCGGTGTTCAGCTACATCGAGGGCTGGTACAACCCGCGCCGACGCCACTCCGCGCTGAGCTACCACTCACCCGTGGAGTTCGA
GCGCCGCGTCGTCGCCGAGGCGTGTCAGGCAACGGAGATCAACGAGAGAGACCAAATCCCGGCTTGAGAATCAAGCCGATAACCGTCCGTGGAAGCGGGA
CAACTTCA
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 | |
|---|---|---|---|---|---|
| 324 bp | 107 aa | 54 | 377 | + | No |
Description : First part of the transposase
ORF sequence :
MGKTRPPYPAEFREQIVELVRAGRTPAELAREFDVTAQTIANWVGAAGGQASRSQATAGALTGSEREELARLRRQLRQVQMERDILAKATAWFAAKSDKT
FTPSSNS
FTPSSNS
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1113 bp | 370 aa | 155 | 1267 | + | No |
Description : Second part of the transposase
ORF sequence :
RDRADHCQLGGCRWWSSVAKPGDGRCAHRERTRGAGQAAPAVAASADGARHPGKGYGLVRRQERQDVHAVFELVNANQADFPVRTMCRVLGVSHSGFYDW
RHRAPSQRAMEDMVLTERIRQVHAESRETYGQPRVRAELAAQGVRVAGKRIARLMRQAGLQGISKRRATTVTTRRDPRERPAADLVMRRFRAERANQLWV
ADMTYVPTWAGFVYLAVVMDVFSRRIVGWSMGERMTAQLVLAALNMALARRKPQGVIHHSDQGSQYTSLAFGQRCAEMGVRPSMGSVGDAYDNAMAESFF
ATLECELIERRSFRSKAEAKAAVFSYIEGWYNPRRRHSALSYHSPVEFERRVVAEACQATEINERDQIPA
RHRAPSQRAMEDMVLTERIRQVHAESRETYGQPRVRAELAAQGVRVAGKRIARLMRQAGLQGISKRRATTVTTRRDPRERPAADLVMRRFRAERANQLWV
ADMTYVPTWAGFVYLAVVMDVFSRRIVGWSMGERMTAQLVLAALNMALARRKPQGVIHHSDQGSQYTSLAFGQRCAEMGVRPSMGSVGDAYDNAMAESFF
ATLECELIERRSFRSKAEAKAAVFSYIEGWYNPRRRHSALSYHSPVEFERRVVAEACQATEINERDQIPA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1214 bp | 404 aa | 54 | 1267 | + | Yes |
Chemistry : DDE
ORF sequence :
MGKTRPPYPAEFREQIVELVRAGRTPAELAREFDVTAQTIANWVGAAGGQASRSQATAGALTGSEREELARLRRQLRQVQMERDILAKGYGLVRRQERQD
VHAVFELVNANQADFPVRTMCRVLGVSHSGFYDWRHRAPSQRAMEDMVLTERIRQVHAESRETYGQPRVRAELAAQGVRVAGKRIARLMRQAGLQGISKR
RATTVTTRRDPRERPAADLVMRRFRAERANQLWVADMTYVPTWAGFVYLAVVMDVFSRRIVGWSMGERMTAQLVLAALNMALARRKPQGVIHHSDQGSQY
TSLAFGQRCAEMGVRPSMGSVGDAYDNAMAESFFATLECELIERRSFRSKAEAKAAVFSYIEGWYNPRRRHSALSYHSPVEFERRVVAEACQATEINERD
QIPA
VHAVFELVNANQADFPVRTMCRVLGVSHSGFYDWRHRAPSQRAMEDMVLTERIRQVHAESRETYGQPRVRAELAAQGVRVAGKRIARLMRQAGLQGISKR
RATTVTTRRDPRERPAADLVMRRFRAERANQLWVADMTYVPTWAGFVYLAVVMDVFSRRIVGWSMGERMTAQLVLAALNMALARRKPQGVIHHSDQGSQY
TSLAFGQRCAEMGVRPSMGSVGDAYDNAMAESFFATLECELIERRSFRSKAEAKAAVFSYIEGWYNPRRRHSALSYHSPVEFERRVVAEACQATEINERD
QIPA
Blast result :
Comments
ISAav4 is 60% (ORFA) and 74% (ORFB) aa similar to ISMan1. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Dalin,E., Tice,H., Pitluck,S., Kiss,H., Brettin,T., Bruce,D., Han,C., Tapia,R., Gilna,P., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Stahl,D. and Richardson,P. (2007) Direct submission GenBank.