ISPna1
- Family IS630
- Group
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_008758 | ND | Polaromonas naphthalenivorans | Polaromonas naphthalenivorans CJ2 plasmid pPNAP02 |
DNA section
IS Length : 1179 bp
Ends
IR Length : 14
IRL : GTGTCGCGTCATGAGGTAATTGACGTAGACAATGGGGGATGGAGCATTAC
IRR : GTGTCGCGTCATGAAAAATTTGTCGGGTAAAGCCGTTTGAGTTTGACGCG
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CCGCTGGCTC | TA | GGAGTCTGAG | 2 |
DNA sequence
GTGTCGCGTCATGAGGTAATTGACGTAGACAATGGGGGATGGAGCATTACAAAGTCACCTTGTCAGAACAAGAAAGAGTCGAGCTGCAGGACATCGCGGG
CAAAGGCACGCACGCCGCGTCCAAGGTCATCAATGCCTTGATACTGCTTAACTGCGACCAAGCCGGTAGCCGCACCGAACGCCCCCGCACCTGCGACATC
GCAGCCATGCTGTGCGTGAGTGAGCGCAAGGTGGACAGGATCAAGAAGAAGTTTGTCCTGGAAGGCTTGGCGCTGACGCTGAACCGCCAGCCCTCCAAGT
GCGAGTACGACCTGTTGATCGATGGCCGCCTGGAAGCGCAGCTGTTGGCGCTGAGTTGCTCGGCGCCTCCCGAAGGCCAGGCCCGCTGGTCGCTGCGGCT
GCTGGCCGACCGGCTGGTCGAGCTCGAATTGATTGATAGCGTCTCGCACGAGACGGTGCGCCGCACGCTCAAAAAAACGAACTCAAGCCCTGGAGGAAAG
TCGGCTGGGTGATCGCGCCCCAGGCCAACGCTCAATTCGTGGCCGCCATGGAAAAGGTGCTGGACATCTACAGCCGGCCTTACGATGCGAAGCACCCCGT
GGTGTGCATGGACGAGACGCCTCGCCAACTCATTCGCGAGACGCGCGAGCCCATTGCAGTGGCGCCCGGCCGGCCCGAGCGCCATGACTACGAGTACGAA
CGCTGCGGCGTGTGCAACGTGTTCATGGCCAGCGAGCCGCTGGCCGGTCTGCGCCTGACCAAGGTCACCGAGCGGCGGACCAAACTGGACTGGGCGGTGT
TCGTGCAAGACATCGCTGAAAGCTACCTTGACGCCGAGCGCATCACGTTGGTGATGGACAACCTGAATACGCACACGCCGGCCTCGCTGTACGAGGCGTT
TACCCCGGAGAAAGCCAAGGCGCTGTGGGACCGCTTCGAGTTTGTCTACACCCCGAAGCACGGCAGCTGGCTGAACATGGCAGAAATTGAGATCAATGTC
ATGGTGAGCCAGTGTCTGGATCGGCGCATCGACAACATCGAGACCGTGCGAAGCGAAGTCGCTGCCTGGCAAGCCCTCCGCGACAACCGTCAGGCCAAAG
TCAACTGGCAATTCACCACCAAGGATGCCCGCGTCAAACTCAAACGGCTTTACCCGACAAATTTTTCATGACGCGACAC
CAAAGGCACGCACGCCGCGTCCAAGGTCATCAATGCCTTGATACTGCTTAACTGCGACCAAGCCGGTAGCCGCACCGAACGCCCCCGCACCTGCGACATC
GCAGCCATGCTGTGCGTGAGTGAGCGCAAGGTGGACAGGATCAAGAAGAAGTTTGTCCTGGAAGGCTTGGCGCTGACGCTGAACCGCCAGCCCTCCAAGT
GCGAGTACGACCTGTTGATCGATGGCCGCCTGGAAGCGCAGCTGTTGGCGCTGAGTTGCTCGGCGCCTCCCGAAGGCCAGGCCCGCTGGTCGCTGCGGCT
GCTGGCCGACCGGCTGGTCGAGCTCGAATTGATTGATAGCGTCTCGCACGAGACGGTGCGCCGCACGCTCAAAAAAACGAACTCAAGCCCTGGAGGAAAG
TCGGCTGGGTGATCGCGCCCCAGGCCAACGCTCAATTCGTGGCCGCCATGGAAAAGGTGCTGGACATCTACAGCCGGCCTTACGATGCGAAGCACCCCGT
GGTGTGCATGGACGAGACGCCTCGCCAACTCATTCGCGAGACGCGCGAGCCCATTGCAGTGGCGCCCGGCCGGCCCGAGCGCCATGACTACGAGTACGAA
CGCTGCGGCGTGTGCAACGTGTTCATGGCCAGCGAGCCGCTGGCCGGTCTGCGCCTGACCAAGGTCACCGAGCGGCGGACCAAACTGGACTGGGCGGTGT
TCGTGCAAGACATCGCTGAAAGCTACCTTGACGCCGAGCGCATCACGTTGGTGATGGACAACCTGAATACGCACACGCCGGCCTCGCTGTACGAGGCGTT
TACCCCGGAGAAAGCCAAGGCGCTGTGGGACCGCTTCGAGTTTGTCTACACCCCGAAGCACGGCAGCTGGCTGAACATGGCAGAAATTGAGATCAATGTC
ATGGTGAGCCAGTGTCTGGATCGGCGCATCGACAACATCGAGACCGTGCGAAGCGAAGTCGCTGCCTGGCAAGCCCTCCGCGACAACCGTCAGGCCAAAG
TCAACTGGCAATTCACCACCAAGGATGCCCGCGTCAAACTCAAACGGCTTTACCCGACAAATTTTTCATGACGCGACAC
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 | |
---|---|---|---|---|---|
474 bp | 157 aa | 39 | 512 | + | No |
Description : First part of the transposase
ORF sequence :
MEHYKVTLSEQERVELQDIAGKGTHAASKVINALILLNCDQAGSRTERPRTCDIAAMLCVSERKVDRIKKKFVLEGLALTLNRQPSKCEYDLLIDGRLEA
QLLALSCSAPPEGQARWSLRLLADRLVELELIDSVSHETVRRTLKKTNSSPGGKSAG
QLLALSCSAPPEGQARWSLRLLADRLVELELIDSVSHETVRRTLKKTNSSPGGKSAG
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
732 bp | 243 aa | 440 | 1171 | + | No |
Description : Second part of the transposase
ORF sequence :
RLARDGAPHAQKNELKPWRKVGWVIAPQANAQFVAAMEKVLDIYSRPYDAKHPVVCMDETPRQLIRETREPIAVAPGRPERHDYEYERCGVCNVFMASEP
LAGLRLTKVTERRTKLDWAVFVQDIAESYLDAERITLVMDNLNTHTPASLYEAFTPEKAKALWDRFEFVYTPKHGSWLNMAEIEINVMVSQCLDRRIDNI
ETVRSEVAAWQALRDNRQAKVNWQFTTKDARVKLKRLYPTNFS
LAGLRLTKVTERRTKLDWAVFVQDIAESYLDAERITLVMDNLNTHTPASLYEAFTPEKAKALWDRFEFVYTPKHGSWLNMAEIEINVMVSQCLDRRIDNI
ETVRSEVAAWQALRDNRQAKVNWQFTTKDARVKLKRLYPTNFS
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1133 bp | 377 aa | 39 | 1171 | + | Yes |
Chemistry : DDE
ORF sequence :
MEHYKVTLSEQERVELQDIAGKGTHAASKVINALILLNCDQAGSRTERPRTCDIAAMLCVSERKVDRIKKKFVLEGLALTLNRQPSKCEYDLLIDGRLEA
QLLALSCSAPPEGQARWSLRLLADRLVELELIDSVSHETVRRTLKKNELKPWRKVGWVIAPQANAQFVAAMEKVLDIYSRPYDAKHPVVCMDETPRQLIR
ETREPIAVAPGRPERHDYEYERCGVCNVFMASEPLAGLRLTKVTERRTKLDWAVFVQDIAESYLDAERITLVMDNLNTHTPASLYEAFTPEKAKALWDRF
EFVYTPKHGSWLNMAEIEINVMVSQCLDRRIDNIETVRSEVAAWQALRDNRQAKVNWQFTTKDARVKLKRLYPTNFS
QLLALSCSAPPEGQARWSLRLLADRLVELELIDSVSHETVRRTLKKNELKPWRKVGWVIAPQANAQFVAAMEKVLDIYSRPYDAKHPVVCMDETPRQLIR
ETREPIAVAPGRPERHDYEYERCGVCNVFMASEPLAGLRLTKVTERRTKLDWAVFVQDIAESYLDAERITLVMDNLNTHTPASLYEAFTPEKAKALWDRF
EFVYTPKHGSWLNMAEIEINVMVSQCLDRRIDNIETVRSEVAAWQALRDNRQAKVNWQFTTKDARVKLKRLYPTNFS
Blast result :
Comments
ISPna1 is 80% aa similar to ISCARN102. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] ISfinder annotation (2010)
2] Yagi,J.M., Sims,D., Brettin,T., Bruce,D. and Madsen,E.L.(2009) Environ. Microbiol. 11 (9), 2253-2270
2] Yagi,J.M., Sims,D., Brettin,T., Bruce,D. and Madsen,E.L.(2009) Environ. Microbiol. 11 (9), 2253-2270