ISMex42
- Family IS5
- Group IS427
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_010172 | ND | Methylobacterium extorquens | Methylobacterium extorquens PA1 |
DNA section
IS Length : 841 bp
Ends
IR Length : 18/23
IRL : GGCCTGTTGTCGCTTGAACGGATTGCCAACTCTGGCGTTTTCTCGTTTTC
IRR : GTCCTGTTGTCACTTGATCCAATCGAGCGTTGCGGCAAGGCAGAGAACGC
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
GCAACCCGCTTGA | CTAG | CAAGACAGTCGCT | 4 |
DNA sequence
GGCCTGTTGTCGCTTGAACGGATTGCCAACTCTGGCGTTTTCTCGTTTTCAAGTGAGGAGGCGTGATGCTGTCGGACGCGCAGTGGGATGAGTTGGAGCC
GTTGATCGAGGCCTGTCGCCCAAAGGCCAAGACGCCGCCTCAGGAGCTTCGGCGCACGATCTCGGCCATCCTCTGGCGGCATCAGAACGGGGCCAAGTGG
CGGGCCATCCCCGAGGAATTGGGCCCTTGGTGGCGCGCTGCTCAGATCTTCATCCGGTGGGCGCGCGCCGGGGTGTGGGAGCGGTTGCTCGACCGCGTGC
AGGAGCGCGGTCTCGCACTGGGCATGGTCTTCCTCGACGGCAGCAACGTGCGGGCTCATCAGAAGGCGGCGGGCGCTGCAAAAAGGGGGGATCTGCGGCC
GAGCGAGACCATCGTGAAGCGCTTGGCCGCTCAGGTGGCGGCTATGGCACCAAAGCCTGCGTGATCGCCGACGGAGCGGGCCGCGCCGTCGCCTTCCGCA
TCGCCCCGGGGCAGGCGCACGAACTGCCCCATGCCATCCCGTTGCTCGACCAATTGCCCGGTGTGCCGAAGTGGGTGGTGGGCGACCGCGGCTACTCCAG
CCACGGCTTCCGCGACCACATCTGGAAGGCAGGCGCCCGGCCCGCGATCCCGACCAAACGCAACGAGGCCCCGGTCGCCTGCCCGAGTTGGGTCTACAAC
AACCGCAACATCGTCGAGCGGCTCTGGGCGCGCCTCAAGAAGTGGCGGGCCGTGGCAACCCGATACGAGAAGACCGCCCTCAGCTTCACCGGCGTTCTCT
GCCTTGCCGCAACGCTCGATTGGATCAAGTGACAACAGGAC
GTTGATCGAGGCCTGTCGCCCAAAGGCCAAGACGCCGCCTCAGGAGCTTCGGCGCACGATCTCGGCCATCCTCTGGCGGCATCAGAACGGGGCCAAGTGG
CGGGCCATCCCCGAGGAATTGGGCCCTTGGTGGCGCGCTGCTCAGATCTTCATCCGGTGGGCGCGCGCCGGGGTGTGGGAGCGGTTGCTCGACCGCGTGC
AGGAGCGCGGTCTCGCACTGGGCATGGTCTTCCTCGACGGCAGCAACGTGCGGGCTCATCAGAAGGCGGCGGGCGCTGCAAAAAGGGGGGATCTGCGGCC
GAGCGAGACCATCGTGAAGCGCTTGGCCGCTCAGGTGGCGGCTATGGCACCAAAGCCTGCGTGATCGCCGACGGAGCGGGCCGCGCCGTCGCCTTCCGCA
TCGCCCCGGGGCAGGCGCACGAACTGCCCCATGCCATCCCGTTGCTCGACCAATTGCCCGGTGTGCCGAAGTGGGTGGTGGGCGACCGCGGCTACTCCAG
CCACGGCTTCCGCGACCACATCTGGAAGGCAGGCGCCCGGCCCGCGATCCCGACCAAACGCAACGAGGCCCCGGTCGCCTGCCCGAGTTGGGTCTACAAC
AACCGCAACATCGTCGAGCGGCTCTGGGCGCGCCTCAAGAAGTGGCGGGCCGTGGCAACCCGATACGAGAAGACCGCCCTCAGCTTCACCGGCGTTCTCT
GCCTTGCCGCAACGCTCGATTGGATCAAGTGACAACAGGAC
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 | 66 | 464 | + | No |
Description : First part of the transposase
ORF sequence :
MLSDAQWDELEPLIEACRPKAKTPPQELRRTISAILWRHQNGAKWRAIPEELGPWWRAAQIFIRWARAGVWERLLDRVQERGLALGMVFLDGSNVRAHQK
AAGAAKRGDLRPSETIVKRLAAQVAAMAPKPA
AAGAAKRGDLRPSETIVKRLAAQVAAMAPKPA
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
741 bp | 246 aa | 92 | 832 | + | No |
Description : Second part of the transposase
ORF sequence :
VGAVDRGLSPKGQDAASGASAHDLGHPLAASERGQVAGHPRGIGPLVARCSDLHPVGARRGVGAVARPRAGARSRTGHGLPRRQQRAGSSEGGGRCKKGG
SAAERDHREALGRSGGGYGTKACVIADGAGRAVAFRIAPGQAHELPHAIPLLDQLPGVPKWVVGDRGYSSHGFRDHIWKAGARPAIPTKRNEAPVACPSW
VYNNRNIVERLWARLKKWRAVATRYEKTALSFTGVLCLAATLDWIK
SAAERDHREALGRSGGGYGTKACVIADGAGRAVAFRIAPGQAHELPHAIPLLDQLPGVPKWVVGDRGYSSHGFRDHIWKAGARPAIPTKRNEAPVACPSW
VYNNRNIVERLWARLKKWRAVATRYEKTALSFTGVLCLAATLDWIK
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
767 bp | 255 aa | 66 | 832 | + | Yes |
Chemistry : DDE
ORF sequence :
MLSDAQWDELEPLIEACRPKAKTPPQELRRTISAILWRHQNGAKWRAIPEELGPWWRAAQIFIRWARAGVWERLLDRVQERGLALGMVFLDGSNVRAHQK
AAGAAKKGGSAAERDHREALGRSGGGYGTKACVIADGAGRAVAFRIAPGQAHELPHAIPLLDQLPGVPKWVVGDRGYSSHGFRDHIWKAGARPAIPTKRN
EAPVACPSWVYNNRNIVERLWARLKKWRAVATRYEKTALSFTGVLCLAATLDWIK
AAGAAKKGGSAAERDHREALGRSGGGYGTKACVIADGAGRAVAFRIAPGQAHELPHAIPLLDQLPGVPKWVVGDRGYSSHGFRDHIWKAGARPAIPTKRN
EAPVACPSWVYNNRNIVERLWARLKKWRAVATRYEKTALSFTGVLCLAATLDWIK
Blast result :
Comments
ISMex42 is 53% aa similar to ISCc1.
The third ORf is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
The third ORf is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Stephane Vuilleumier et.al. Methylobacterium genome sequences: a reference blueprint to investigate microbial metabolism of C1 compounds from natural and industrial sources. (2009) PLoS ONE Submitted.
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Glavina del Rio,T., Dalin,E., Tice,H., Pitluck,S., Saunders,E., Brettin,T., Bruce,D., Detter,J.C., Han,C., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Marx,C. and Richardson,P. (2007) Direct submission GenBank.
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Glavina del Rio,T., Dalin,E., Tice,H., Pitluck,S., Saunders,E., Brettin,T., Bruce,D., Detter,J.C., Han,C., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Marx,C. and Richardson,P. (2007) Direct submission GenBank.