ISMex11
- Family IS3
- Group IS407
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
ND | Methylobacterium extorquens | Methylobacterium extorquens AM1 Methylobacterium dichloromethanicum DM4 |
DNA section
IS Length : 1227 bp
Ends
IR Length : 22/32
IRL : TGACGTCCCCCCATCGCTTTGGTCCGGCGTGAGTGCGAGTTTTCCGGTTG
IRR : TGAGGGTCCCCCGGATTTTGGTCCGGCCGGAAGGTGAGCTTCCGGATCTC
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
GTGGAGCAAA | GGCC | GACCCTGCAC | 4 |
CCAAGCTGTC | ACAG | CCCGAGAACT | 4 |
GCATCCACCG | GC | CACAGCGCCG | 2 |
CCAGGCGAGC | CG | CCGTCTGTAC | 2 |
TTTTTCACCC | GCCGACCCTG | 0 |
DNA sequence
TGACGTCCCCCCATCGCTTTGGTCCGGCGTGAGTGCGAGTTTTCCGGTTGTGTGAGCCCCTGAGGGGAGGAGCAGAGCCGTGAAGAAGAGCAGGTTCACC
GAAGAGCAGATCGCCTTCGCGCTGAAGCAGGCCGAGACCGGGACACCGGTCGCGGAGGTGCTGCGCCGGATGGGCATCTCCGAACAGACGTTTTACCGCT
GGAAGAAGCTCTACGGCGGCTTGGGCACAGGCGAGCTGCGGCGGCTGAAGCAGCTTGAGGACGAGAACCGCAAGCTCAAGCAGCTGGTTGCCGATCTGAG
CCTCGACAAGCACATCCTGCAGGACGTGCTCGCAAAAAAGCTCTGACGCCTGCTCGGCGACGCGAGCTCGTGCACCAGGTTCAGGAGGCGCACGGGGTGA
GCGAGCGGCGCGGCTGCGCCGCGCTCGGCGTCGGTCGGTCGGGCGTCCGCTACCGCTCGACCAAGCCCGATCAGGCACCGCTGCGGATGCGCATCTGTGA
TCTGGCCAAGAGCCGGGTGCGCTACGGGTACTTCCGGATCTACATCCTGCTGCGCCGGGAAGGTTGGCGGGTGAATCACAAGAGGGTCCACCGCCTCTAC
AGGGATGAGGGCCTCAGCCTGCGGCTCAAGCGGCCGCGCCGGCACGTCAGCGCGGCACACCGTGAGCGTCAGCCTGCTGCGCTCCGGCCGAACGAACGCT
GGTCGATGGACTTCGTCTCCGACGCGCTGTTCGACGGCCGCCGGCTGCGGGCCCTGACGGTCGTCGATGCATTCACGCGCGAGGCTCTGGCGATCGAGGT
CGACCAGGGCATCAAAGGCGAACAGGTCGTGGCTGTCGTCGGCCGCTTGGCGCTGCTGCGCGGAGCACCATGCGCGATTCAGGTCGATAACGGGCCTGAG
TTCGTCTCGAAAGCCCTCGACCGCTGGGCCTACGAGAACGGTGTCACGTTGGACTTCTCACGGCCCGGCAAGCCGACCGACAACGCGCTGGTCGAGTCGT
TCAACGGCCGGCTGCGCGACGAGTGCCTGAACGCGAACTGGTTCTTGTCGTTGGCCGACGCGAGGAGCAAGATCGAGACGTGGCGGCGGCACTACAACGA
GAGCCGTCCTCACACCGCCCTGGGGTGGCGAACACCCCAGGAATTCGCCCTAGCGGCGGCCCTGCAGGCCGCCGAATGAGATCCGGAAGCTCACCTTCCG
GCCGGACCAAAATCCGGGGGACCCTCA
GAAGAGCAGATCGCCTTCGCGCTGAAGCAGGCCGAGACCGGGACACCGGTCGCGGAGGTGCTGCGCCGGATGGGCATCTCCGAACAGACGTTTTACCGCT
GGAAGAAGCTCTACGGCGGCTTGGGCACAGGCGAGCTGCGGCGGCTGAAGCAGCTTGAGGACGAGAACCGCAAGCTCAAGCAGCTGGTTGCCGATCTGAG
CCTCGACAAGCACATCCTGCAGGACGTGCTCGCAAAAAAGCTCTGACGCCTGCTCGGCGACGCGAGCTCGTGCACCAGGTTCAGGAGGCGCACGGGGTGA
GCGAGCGGCGCGGCTGCGCCGCGCTCGGCGTCGGTCGGTCGGGCGTCCGCTACCGCTCGACCAAGCCCGATCAGGCACCGCTGCGGATGCGCATCTGTGA
TCTGGCCAAGAGCCGGGTGCGCTACGGGTACTTCCGGATCTACATCCTGCTGCGCCGGGAAGGTTGGCGGGTGAATCACAAGAGGGTCCACCGCCTCTAC
AGGGATGAGGGCCTCAGCCTGCGGCTCAAGCGGCCGCGCCGGCACGTCAGCGCGGCACACCGTGAGCGTCAGCCTGCTGCGCTCCGGCCGAACGAACGCT
GGTCGATGGACTTCGTCTCCGACGCGCTGTTCGACGGCCGCCGGCTGCGGGCCCTGACGGTCGTCGATGCATTCACGCGCGAGGCTCTGGCGATCGAGGT
CGACCAGGGCATCAAAGGCGAACAGGTCGTGGCTGTCGTCGGCCGCTTGGCGCTGCTGCGCGGAGCACCATGCGCGATTCAGGTCGATAACGGGCCTGAG
TTCGTCTCGAAAGCCCTCGACCGCTGGGCCTACGAGAACGGTGTCACGTTGGACTTCTCACGGCCCGGCAAGCCGACCGACAACGCGCTGGTCGAGTCGT
TCAACGGCCGGCTGCGCGACGAGTGCCTGAACGCGAACTGGTTCTTGTCGTTGGCCGACGCGAGGAGCAAGATCGAGACGTGGCGGCGGCACTACAACGA
GAGCCGTCCTCACACCGCCCTGGGGTGGCGAACACCCCAGGAATTCGCCCTAGCGGCGGCCCTGCAGGCCGCCGAATGAGATCCGGAAGCTCACCTTCCG
GCCGGACCAAAATCCGGGGGACCCTCA
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 | 80 | 346 | + | No |
Description : First part of the transposase
ORF sequence :
VKKSRFTEEQIAFALKQAETGTPVAEVLRRMGISEQTFYRWKKLYGGLGTGELRRLKQLEDENRKLKQLVADLSLDKHILQDVLAKKL
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
921 bp | 306 aa | 259 | 1179 | + | No |
Description : Second part of the transposase
ORF sequence :
GREPQAQAAGCRSEPRQAHPAGRARKKALTPARRRELVHQVQEAHGVSERRGCAALGVGRSGVRYRSTKPDQAPLRMRICDLAKSRVRYGYFRIYILLRR
EGWRVNHKRVHRLYRDEGLSLRLKRPRRHVSAAHRERQPAALRPNERWSMDFVSDALFDGRRLRALTVVDAFTREALAIEVDQGIKGEQVVAVVGRLALL
RGAPCAIQVDNGPEFVSKALDRWAYENGVTLDFSRPGKPTDNALVESFNGRLRDECLNANWFLSLADARSKIETWRRHYNESRPHTALGWRTPQEFALAA
ALQAAE
EGWRVNHKRVHRLYRDEGLSLRLKRPRRHVSAAHRERQPAALRPNERWSMDFVSDALFDGRRLRALTVVDAFTREALAIEVDQGIKGEQVVAVVGRLALL
RGAPCAIQVDNGPEFVSKALDRWAYENGVTLDFSRPGKPTDNALVESFNGRLRDECLNANWFLSLADARSKIETWRRHYNESRPHTALGWRTPQEFALAA
ALQAAE
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1100 bp | 366 aa | 80 | 1179 | + | Yes |
Chemistry : DDE
ORF sequence :
VKKSRFTEEQIAFALKQAETGTPVAEVLRRMGISEQTFYRWKKLYGGLGTGELRRLKQLEDENRKLKQLVADLSLDKHILQDVLAKKALTPARRRELVHQ
VQEAHGVSERRGCAALGVGRSGVRYRSTKPDQAPLRMRICDLAKSRVRYGYFRIYILLRREGWRVNHKRVHRLYRDEGLSLRLKRPRRHVSAAHRERQPA
ALRPNERWSMDFVSDALFDGRRLRALTVVDAFTREALAIEVDQGIKGEQVVAVVGRLALLRGAPCAIQVDNGPEFVSKALDRWAYENGVTLDFSRPGKPT
DNALVESFNGRLRDECLNANWFLSLADARSKIETWRRHYNESRPHTALGWRTPQEFALAAALQAAE
VQEAHGVSERRGCAALGVGRSGVRYRSTKPDQAPLRMRICDLAKSRVRYGYFRIYILLRREGWRVNHKRVHRLYRDEGLSLRLKRPRRHVSAAHRERQPA
ALRPNERWSMDFVSDALFDGRRLRALTVVDAFTREALAIEVDQGIKGEQVVAVVGRLALLRGAPCAIQVDNGPEFVSKALDRWAYENGVTLDFSRPGKPT
DNALVESFNGRLRDECLNANWFLSLADARSKIETWRRHYNESRPHTALGWRTPQEFALAAALQAAE
Blast result :
Comments
ISMex11 is 78% aa similar to ISBcen15.
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] Stéphane Vuilleumier et.al. Methylobacterium genome sequences: a reference blueprint to investigate microbial metabolism of C1 compounds from natural and industrial sources. PLoS ONE Submitted. (2009)