ISMdi21
- Family IS5
- Group IS1031
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| ND | Methylobacterium dichloromethanicum | Methylobacterium dichloromethanicum DM4 |
DNA section
IS Length : 930 bp
Ends
IR Length : 16/22
IRL : GTCTGTCCGGGAAGAAGTTGAATCCTATGAATCATTTGTGATTCAAGAGA
IRR : GTCTGTCCGGAGAGATCATGCAGGATTGCATAGTTTTCTCAGCATGAGCC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GCCTCAACT | TCTAAGT | GTCTGTCCG | 7 |
DNA sequence
GTCTGTCCGGGAAGAAGTTGAATCCTATGAATCATTTGTGATTCAAGAGAGGTGGCCTGATTCGGAGGGGCCGCCGATGTGGACGAATGAAAACCGCGCG
CGGTATGACCGCAGCCATTTGCGCTATCCCAGCGACCTCACCGACGACGAATGGAAACTGGTCGAACCGTTGATCCCGCCAGGCAGGCGCGGCGGTGACA
AACGCACAGTGATCATGCGCGAGGTTGTGAACGGCCTCATGTATATTCTCTCCACCGGTTGTCAGTGGCGAGCCATCCCGAAAGACCTGCCGCCGCGCTC
GACGTTGTACGATTATTTCGACCTGTGGAGTTGGAATCGCACGCTCGATCTCATACATCATGAGCTCTATGTAAAATGCCGCGAAGCGATCGGCCGGGAA
GCCAGTCCCACCGCCGCCGTTATCGATAGCCAAAGCGTCAAAAGCGCTGAAAAAGGGGGGCTTCGATTGATCCGCCGGGCTACGACGCGGGAAAGAAGAT
CAAGGGCAAGAAGCGGCACATTCTCGTCGATACGCAAGGCCTGTTGATTCATGCCATCGTTCATGCTGCTGACATTCAGGATCGCGACGGCGGCTCGTTC
GTGATGGCGACCATGTTCGGCTTGTATCCGTTCCTGATGAAACTCTACGCCGACGGCGGCTATCAAGGCCCGTTGTTTCGCCGCGCCGTGGCAAAAATAA
TGGAGCGGGTGAATGTGGAGATCGTCAAGCGTTCCGATCACGCAAAAGGATTTGTTGTCCTCCCGAAGCGGTGGGTCGTCGAACGAACGTTCGCATGGCT
CGGGCGGTGCAGACGTCTCGCCAAAGATTGGGAGAATCTCAATCGCAAGGCGCTCGCATTTCTGCGCCTCGCTTCAATCAGGCTCATGCTGAGAAAACTA
TGCAATCCTGCATGATCTCTCCGGACAGAC
CGGTATGACCGCAGCCATTTGCGCTATCCCAGCGACCTCACCGACGACGAATGGAAACTGGTCGAACCGTTGATCCCGCCAGGCAGGCGCGGCGGTGACA
AACGCACAGTGATCATGCGCGAGGTTGTGAACGGCCTCATGTATATTCTCTCCACCGGTTGTCAGTGGCGAGCCATCCCGAAAGACCTGCCGCCGCGCTC
GACGTTGTACGATTATTTCGACCTGTGGAGTTGGAATCGCACGCTCGATCTCATACATCATGAGCTCTATGTAAAATGCCGCGAAGCGATCGGCCGGGAA
GCCAGTCCCACCGCCGCCGTTATCGATAGCCAAAGCGTCAAAAGCGCTGAAAAAGGGGGGCTTCGATTGATCCGCCGGGCTACGACGCGGGAAAGAAGAT
CAAGGGCAAGAAGCGGCACATTCTCGTCGATACGCAAGGCCTGTTGATTCATGCCATCGTTCATGCTGCTGACATTCAGGATCGCGACGGCGGCTCGTTC
GTGATGGCGACCATGTTCGGCTTGTATCCGTTCCTGATGAAACTCTACGCCGACGGCGGCTATCAAGGCCCGTTGTTTCGCCGCGCCGTGGCAAAAATAA
TGGAGCGGGTGAATGTGGAGATCGTCAAGCGTTCCGATCACGCAAAAGGATTTGTTGTCCTCCCGAAGCGGTGGGTCGTCGAACGAACGTTCGCATGGCT
CGGGCGGTGCAGACGTCTCGCCAAAGATTGGGAGAATCTCAATCGCAAGGCGCTCGCATTTCTGCGCCTCGCTTCAATCAGGCTCATGCTGAGAAAACTA
TGCAATCCTGCATGATCTCTCCGGACAGAC
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 | |
|---|---|---|---|---|---|
| 471 bp | 156 aa | 77 | 547 | + | No |
Description : First part of the transposase
ORF sequence :
MWTNENRARYDRSHLRYPSDLTDDEWKLVEPLIPPGRRGGDKRTVIMREVVNGLMYILSTGCQWRAIPKDLPPRSTLYDYFDLWSWNRTLDLIHHELYVK
CREAIGREASPTAAVIDSQSVKSAEKGGLRLIRRATTRERRSRARSGTFSSIRKAC
CREAIGREASPTAAVIDSQSVKSAEKGGLRLIRRATTRERRSRARSGTFSSIRKAC
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 465 bp | 154 aa | 451 | 915 | + | No |
Description : Second part of the transposase
ORF sequence :
KRGASIDPPGYDAGKKIKGKKRHILVDTQGLLIHAIVHAADIQDRDGGSFVMATMFGLYPFLMKLYADGGYQGPLFRRAVAKIMERVNVEIVKRSDHAKG
FVVLPKRWVVERTFAWLGRCRRLAKDWENLNRKALAFLRLASIRLMLRKLCNPA*
FVVLPKRWVVERTFAWLGRCRRLAKDWENLNRKALAFLRLASIRLMLRKLCNPA*
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 839 bp | 279 aa | 77 | 915 | + | Yes |
Chemistry : DDE
ORF sequence :
MWTNENRARYDRSHLRYPSDLTDDEWKLVEPLIPPGRRGGDKRTVIMREVVNGLMYILSTGCQWRAIPKDLPPRSTLYDYFDLWSWNRTLDLIHHELYVK
CREAIGREASPTAAVIDSQSVKSAEKGGASIDPPGYDAGKKIKGKKRHILVDTQGLLIHAIVHAADIQDRDGGSFVMATMFGLYPFLMKLYADGGYQGPL
FRRAVAKIMERVNVEIVKRSDHAKGFVVLPKRWVVERTFAWLGRCRRLAKDWENLNRKALAFLRLASIRLMLRKLCNPA
CREAIGREASPTAAVIDSQSVKSAEKGGASIDPPGYDAGKKIKGKKRHILVDTQGLLIHAIVHAADIQDRDGGSFVMATMFGLYPFLMKLYADGGYQGPL
FRRAVAKIMERVNVEIVKRSDHAKGFVVLPKRWVVERTFAWLGRCRRLAKDWENLNRKALAFLRLASIRLMLRKLCNPA
Blast result :
Comments
ISMdi21 is 87% aa similar to IS1355. 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.