ISMch1
- Family IS3
- Group IS150
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_011758 | ND | Methylobacterium chloromethanicum | Methylobacterium chloromethanicum CM4 plasmid pMCHL01 |
DNA section
IS Length : 1294 bp
Ends
IR Length : 21/26
IRL : TGAGGTGGCGCCGGTTTTCTGGACAGGAAGCTAAGCTATCCCGGACGTGA
IRR : TGAGGTGGTCCCGCCTTCTTGGACAGTTTGGCGGCTGAGCTAAGCTATAC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| CAGGCCAGTG | GGGGTCAGCC | 0 | |
| CCGTCCCGCA | TAC | CCCGCCGAGT | 3 |
| GGACGGTGAG | CTCGAGCGAG | 0 |
DNA sequence
TGAGGTGGCGCCGGTTTTCTGGACAGGAAGCTAAGCTATCCCGGACGTGAGGGATGGACGGCAATGAAGACGACACGGAAGCGGTACACGGGTGAGTTCA
AGGCCAAAGTGGCGCTGGAGGCGATCCGGGGCGACCTGACACTGGCCGAACTGGCGACGAAGCATGGCATTCACCCGACGATGCTTGCGACGTGGAAGCG
GCAGGCGATCGAGGGCATGGCCGCGACCTTCTCGGGCGCGACCGAGGCGGCGAAGGCAGTGGGCGACACCGAGATCGAGAAGCTGCACGCCAAGATCGGA
CAACTGGTGGTGGAGCGGGATTTTTTGTCGAAGGGGTTCGCGCGATGAGCGTCGCGCGACGGCGGCAGATGATCGAGCGGGGGCATGCCAGCCTGTCGAT
CACGGCGCAGTGCCGGCTGGTGTCGATCAGCCGGTCGTCCTTCTACTATGCGCCGGTGCCGGAGACGGCCGAAACGCTGGCGCTGATGGCGGTGATCGAC
GCCGCGTTCCTCGATCATCCCTGGTATGGCAGCCGCCAGATGGCACGGCACCTGTGCCGCCTCGGCCATGCGGTCGGGCGTCGGCGGGTGCGGCGGCTGA
TGGCAAAGATGGGGCTGGCACCCATCTACCAGCGTCCGCGGACGAGCGATCCGCACCCGGAGCATCGGATTTACCCGTATCTGCTGCGCGATCTGGAGAT
CACCCGGCCGGGTCACGTCTGGTGCGCCGACATTACGTACCTGCCGATGCGGCGGGGCTTCCTCTATCTCGTCGCCGTCATGGACTGGGCGTCGCGGAAG
GTACTCGCCTGGCGGCTGTCAAACACCATGGACGCGGAGTTCTGCGTCGAGGCTTTGAAGGAAGCGCTGGCGCGCTTCGGCAGGCCCGAGATCTTCAACA
CGGATCAGGGCAGCCAGTTCACCAGCGCCGACTTCACCGACGTGTTGCGCGATGCCGAGGTCCGGATCAGCATGGACGGACGCGGCCGCTGGATGGACAA
CGTCTTCATCGAGCGGCTTTGGCGGTCGCTGAAGTACGAGTGCGTTTACCTGAACGCGTTCGAGACCGGCTCCGAGCTGCGCGCCGGGCTCAGCGGGTGG
ATCGGCTATTACAACGGGCAGCGGCCTCACTCTCGCCTCGGCGGCAGGACGCCGGATGAGGCGTACCAGCAGATCACGGCAACACCATATCCGGGGCATG
CCCCGGATATGGCGCTCACCAAAATGGCGGCATAAACCAACGGGGTATAGCTTAGCTCAGCCGCCAAACTGTCCAAGAAGGCGGGACCACCTCA
AGGCCAAAGTGGCGCTGGAGGCGATCCGGGGCGACCTGACACTGGCCGAACTGGCGACGAAGCATGGCATTCACCCGACGATGCTTGCGACGTGGAAGCG
GCAGGCGATCGAGGGCATGGCCGCGACCTTCTCGGGCGCGACCGAGGCGGCGAAGGCAGTGGGCGACACCGAGATCGAGAAGCTGCACGCCAAGATCGGA
CAACTGGTGGTGGAGCGGGATTTTTTGTCGAAGGGGTTCGCGCGATGAGCGTCGCGCGACGGCGGCAGATGATCGAGCGGGGGCATGCCAGCCTGTCGAT
CACGGCGCAGTGCCGGCTGGTGTCGATCAGCCGGTCGTCCTTCTACTATGCGCCGGTGCCGGAGACGGCCGAAACGCTGGCGCTGATGGCGGTGATCGAC
GCCGCGTTCCTCGATCATCCCTGGTATGGCAGCCGCCAGATGGCACGGCACCTGTGCCGCCTCGGCCATGCGGTCGGGCGTCGGCGGGTGCGGCGGCTGA
TGGCAAAGATGGGGCTGGCACCCATCTACCAGCGTCCGCGGACGAGCGATCCGCACCCGGAGCATCGGATTTACCCGTATCTGCTGCGCGATCTGGAGAT
CACCCGGCCGGGTCACGTCTGGTGCGCCGACATTACGTACCTGCCGATGCGGCGGGGCTTCCTCTATCTCGTCGCCGTCATGGACTGGGCGTCGCGGAAG
GTACTCGCCTGGCGGCTGTCAAACACCATGGACGCGGAGTTCTGCGTCGAGGCTTTGAAGGAAGCGCTGGCGCGCTTCGGCAGGCCCGAGATCTTCAACA
CGGATCAGGGCAGCCAGTTCACCAGCGCCGACTTCACCGACGTGTTGCGCGATGCCGAGGTCCGGATCAGCATGGACGGACGCGGCCGCTGGATGGACAA
CGTCTTCATCGAGCGGCTTTGGCGGTCGCTGAAGTACGAGTGCGTTTACCTGAACGCGTTCGAGACCGGCTCCGAGCTGCGCGCCGGGCTCAGCGGGTGG
ATCGGCTATTACAACGGGCAGCGGCCTCACTCTCGCCTCGGCGGCAGGACGCCGGATGAGGCGTACCAGCAGATCACGGCAACACCATATCCGGGGCATG
CCCCGGATATGGCGCTCACCAAAATGGCGGCATAAACCAACGGGGTATAGCTTAGCTCAGCCGCCAAACTGTCCAAGAAGGCGGGACCACCTCA
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 | |
|---|---|---|---|---|---|
| 285 bp | 94 aa | 64 | 348 | + | No |
Description : First part of the transposase
ORF sequence :
MKTTRKRYTGEFKAKVALEAIRGDLTLAELATKHGIHPTMLATWKRQAIEGMAATFSGATEAAKAVGDTEIEKLHAKIGQLVVERDFLSKGFAR
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1140 bp | 379 aa | 96 | 1235 | + | No |
Description : Second part of the transposase
ORF sequence :
VQGQSGAGGDPGRPDTGRTGDEAWHSPDDACDVEAAGDRGHGRDLLGRDRGGEGSGRHRDREAARQDRTTGGGAGFFVEGVRAMSVARRRQMIERGHASL
SITAQCRLVSISRSSFYYAPVPETAETLALMAVIDAAFLDHPWYGSRQMARHLCRLGHAVGRRRVRRLMAKMGLAPIYQRPRTSDPHPEHRIYPYLLRDL
EITRPGHVWCADITYLPMRRGFLYLVAVMDWASRKVLAWRLSNTMDAEFCVEALKEALARFGRPEIFNTDQGSQFTSADFTDVLRDAEVRISMDGRGRWM
DNVFIERLWRSLKYECVYLNAFETGSELRAGLSGWIGYYNGQRPHSRLGGRTPDEAYQQITATPYPGHAPDMALTKMAA
SITAQCRLVSISRSSFYYAPVPETAETLALMAVIDAAFLDHPWYGSRQMARHLCRLGHAVGRRRVRRLMAKMGLAPIYQRPRTSDPHPEHRIYPYLLRDL
EITRPGHVWCADITYLPMRRGFLYLVAVMDWASRKVLAWRLSNTMDAEFCVEALKEALARFGRPEIFNTDQGSQFTSADFTDVLRDAEVRISMDGRGRWM
DNVFIERLWRSLKYECVYLNAFETGSELRAGLSGWIGYYNGQRPHSRLGGRTPDEAYQQITATPYPGHAPDMALTKMAA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1172 bp | 390 aa | 64 | 1235 | + | Yes |
Chemistry : DDE
ORF sequence :
MKTTRKRYTGEFKAKVALEAIRGDLTLAELATKHGIHPTMLATWKRQAIEGMAATFSGATEAAKAVGDTEIEKLHAKIGQLVVERDFFVEGVRAMSVARR
RQMIERGHASLSITAQCRLVSISRSSFYYAPVPETAETLALMAVIDAAFLDHPWYGSRQMARHLCRLGHAVGRRRVRRLMAKMGLAPIYQRPRTSDPHPE
HRIYPYLLRDLEITRPGHVWCADITYLPMRRGFLYLVAVMDWASRKVLAWRLSNTMDAEFCVEALKEALARFGRPEIFNTDQGSQFTSADFTDVLRDAEV
RISMDGRGRWMDNVFIERLWRSLKYECVYLNAFETGSELRAGLSGWIGYYNGQRPHSRLGGRTPDEAYQQITATPYPGHAPDMALTKMAA
RQMIERGHASLSITAQCRLVSISRSSFYYAPVPETAETLALMAVIDAAFLDHPWYGSRQMARHLCRLGHAVGRRRVRRLMAKMGLAPIYQRPRTSDPHPE
HRIYPYLLRDLEITRPGHVWCADITYLPMRRGFLYLVAVMDWASRKVLAWRLSNTMDAEFCVEALKEALARFGRPEIFNTDQGSQFTSADFTDVLRDAEV
RISMDGRGRWMDNVFIERLWRSLKYECVYLNAFETGSELRAGLSGWIGYYNGQRPHSRLGGRTPDEAYQQITATPYPGHAPDMALTKMAA
Blast result :
Comments
ISMch1 is 81% aa similar to ISAli5. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Ming-Chun Lee and David Robinson, direct submission.