ISMdi16
- Family IS3
- Group IS407
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
ND | Methylobacterium dichloromethanicum | Methylobacterium dichloromethanicum DM4 |
DNA section
IS Length : 1271 bp
Ends
IR Length : 18/25
IRL : TGGCCTGCCCCCTGAAAAGTGGTCCTCCCTGAGGTATGGCTTTGAGCCAT
IRR : TGGCCTGCCCCCATTCGGTGGCCCAGGTGTGAAGTTAGTGCATTGTCGGT
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CAGGCGGATT | CGGTTATGAG | 0 |
DNA sequence
TGGCCTGCCCCCTGAAAAGTGGTCCTCCCTGAGGTATGGCTTTGAGCCATGTGGAGGATGTCATCATGGGACGGAAGAAGCATACGGCTGAAGAGATTGT
TGCCAAGCTGCGCCAAGTGGATGTTCTGGTCTCGCAGGGTCGCAAGGTGTCTGAAGCAATCCGATCCATCGAGGTGACCGAGGTCACGTATTACCGCTGG
CGATCCGAGTACGGCGGTCTGAAGGGTGATCAGGTGAAGCGGCTGAAGTCCTTGGAGATGGAGAACTTGCGCCTGCGTCGGGCGATCTCTGATCTGACGC
TGGAGAAATTGATCCTGAAGGAGGCCGCTTCGGGAAACTTCTGAGCCCGGCTCGCCGCCGGGCTTGCGTCAATCACGTCGTAGCTGAGCACGGTGTGTCG
GAACGCTTCGCCTGCCGCGTCCTGGGCCAGCATCGTTCGACCCAGCGCAAATGCGTCGTGGTGATCGAGGACGAGGCCGCATTGACCGCCGCCATCGTCG
CGCTGGCCCTTCAGTACGGGCGCTACGGCTACCGCCGGATCACGGCGATGCTCCGGCAAGATGGCTGGAGGGTCAACGTGAAGCGGGTCGAGCGCATCTG
GCGGCGTGAAGGGCTCAAGGTCCCGGCCCGGCAACCGAAGCGGGCTCGCCTCTGGCTCAACGACGGCTCCTGTGTGCGCTTGCGGCCGGAGCGGCCCGGC
CACGTCTGGTCCTACGACTTCGTCGAGCACCGCACACACAACGGGCGCAGGTACCGGATGCTGAACGTCATCGATGAGTTCACGCGCGAGTGCTTGGCCA
TCCGCGTATCTCGTAAGCTGAAGGCGCACGACGTGATCGACGTACTCTCGGATCTATTCAGTCTGCGCGGTGTGCCGGGCCATATCCGCTCGGACAATGG
CCCGGAGTTCATCGCGAAAGCTGTCCGAGACTGGATCGCGGCGGTCGGCTCACAGACTGCTTACATCGAGCCCGGCAGTCCCTGGGAGAACGGCTATTGC
GAGAGCTTCAACGCAAAGCTGCGGGACGAACTCCTGAACGGCGAGGTGTTCTACACCCTCAAGGAGGCTGGCGTCGTGATCGAGCAGTGGCGGACGCACT
ACAACAGCACCCGTCCGCACTCCGCGTTGGGCTACCAGCCGCCTGCGCCAGAGATCCTCATCTGGCCAGGAGAGCCAAGCGGTTCAGCCCCGTCCTCCGC
TCGCCCCGCCATCGTCATGCGACCGACAATGCACTAACTTCACACCTGGGCCACCGAATGGGGGCAGGCCA
TGCCAAGCTGCGCCAAGTGGATGTTCTGGTCTCGCAGGGTCGCAAGGTGTCTGAAGCAATCCGATCCATCGAGGTGACCGAGGTCACGTATTACCGCTGG
CGATCCGAGTACGGCGGTCTGAAGGGTGATCAGGTGAAGCGGCTGAAGTCCTTGGAGATGGAGAACTTGCGCCTGCGTCGGGCGATCTCTGATCTGACGC
TGGAGAAATTGATCCTGAAGGAGGCCGCTTCGGGAAACTTCTGAGCCCGGCTCGCCGCCGGGCTTGCGTCAATCACGTCGTAGCTGAGCACGGTGTGTCG
GAACGCTTCGCCTGCCGCGTCCTGGGCCAGCATCGTTCGACCCAGCGCAAATGCGTCGTGGTGATCGAGGACGAGGCCGCATTGACCGCCGCCATCGTCG
CGCTGGCCCTTCAGTACGGGCGCTACGGCTACCGCCGGATCACGGCGATGCTCCGGCAAGATGGCTGGAGGGTCAACGTGAAGCGGGTCGAGCGCATCTG
GCGGCGTGAAGGGCTCAAGGTCCCGGCCCGGCAACCGAAGCGGGCTCGCCTCTGGCTCAACGACGGCTCCTGTGTGCGCTTGCGGCCGGAGCGGCCCGGC
CACGTCTGGTCCTACGACTTCGTCGAGCACCGCACACACAACGGGCGCAGGTACCGGATGCTGAACGTCATCGATGAGTTCACGCGCGAGTGCTTGGCCA
TCCGCGTATCTCGTAAGCTGAAGGCGCACGACGTGATCGACGTACTCTCGGATCTATTCAGTCTGCGCGGTGTGCCGGGCCATATCCGCTCGGACAATGG
CCCGGAGTTCATCGCGAAAGCTGTCCGAGACTGGATCGCGGCGGTCGGCTCACAGACTGCTTACATCGAGCCCGGCAGTCCCTGGGAGAACGGCTATTGC
GAGAGCTTCAACGCAAAGCTGCGGGACGAACTCCTGAACGGCGAGGTGTTCTACACCCTCAAGGAGGCTGGCGTCGTGATCGAGCAGTGGCGGACGCACT
ACAACAGCACCCGTCCGCACTCCGCGTTGGGCTACCAGCCGCCTGCGCCAGAGATCCTCATCTGGCCAGGAGAGCCAAGCGGTTCAGCCCCGTCCTCCGC
TCGCCCCGCCATCGTCATGCGACCGACAATGCACTAACTTCACACCTGGGCCACCGAATGGGGGCAGGCCA
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 | |
---|---|---|---|---|---|
279 bp | 92 aa | 66 | 344 | + | No |
Description : First part of the transposase
ORF sequence :
MGRKKHTAEEIVAKLRQVDVLVSQGRKVSEAIRSIEVTEVTYYRWRSEYGGLKGDQVKRLKSLEMENLRLRRAISDLTLEKLILKEAASGNF
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
945 bp | 314 aa | 293 | 1237 | + | No |
Description : Second part of the transposase
ORF sequence :
SDAGEIDPEGGRFGKLLSPARRRACVNHVVAEHGVSERFACRVLGQHRSTQRKCVVVIEDEAALTAAIVALALQYGRYGYRRITAMLRQDGWRVNVKRVE
RIWRREGLKVPARQPKRARLWLNDGSCVRLRPERPGHVWSYDFVEHRTHNGRRYRMLNVIDEFTRECLAIRVSRKLKAHDVIDVLSDLFSLRGVPGHIRS
DNGPEFIAKAVRDWIAAVGSQTAYIEPGSPWENGYCESFNAKLRDELLNGEVFYTLKEAGVVIEQWRTHYNSTRPHSALGYQPPAPEILIWPGEPSGSAP
SSARPAIVMRPTMH
RIWRREGLKVPARQPKRARLWLNDGSCVRLRPERPGHVWSYDFVEHRTHNGRRYRMLNVIDEFTRECLAIRVSRKLKAHDVIDVLSDLFSLRGVPGHIRS
DNGPEFIAKAVRDWIAAVGSQTAYIEPGSPWENGYCESFNAKLRDELLNGEVFYTLKEAGVVIEQWRTHYNSTRPHSALGYQPPAPEILIWPGEPSGSAP
SSARPAIVMRPTMH
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1172 bp | 390 aa | 66 | 1237 | + | Yes |
Chemistry : DDE
ORF sequence :
MGRKKHTAEEIVAKLRQVDVLVSQGRKVSEAIRSIEVTEVTYYRWRSEYGGLKGDQVKRLKSLEMENLRLRRAISDLTLEKLILKEAASGKLLSPARRRA
CVNHVVAEHGVSERFACRVLGQHRSTQRKCVVVIEDEAALTAAIVALALQYGRYGYRRITAMLRQDGWRVNVKRVERIWRREGLKVPARQPKRARLWLND
GSCVRLRPERPGHVWSYDFVEHRTHNGRRYRMLNVIDEFTRECLAIRVSRKLKAHDVIDVLSDLFSLRGVPGHIRSDNGPEFIAKAVRDWIAAVGSQTAY
IEPGSPWENGYCESFNAKLRDELLNGEVFYTLKEAGVVIEQWRTHYNSTRPHSALGYQPPAPEILIWPGEPSGSAPSSARPAIVMRPTMH
CVNHVVAEHGVSERFACRVLGQHRSTQRKCVVVIEDEAALTAAIVALALQYGRYGYRRITAMLRQDGWRVNVKRVERIWRREGLKVPARQPKRARLWLND
GSCVRLRPERPGHVWSYDFVEHRTHNGRRYRMLNVIDEFTRECLAIRVSRKLKAHDVIDVLSDLFSLRGVPGHIRSDNGPEFIAKAVRDWIAAVGSQTAY
IEPGSPWENGYCESFNAKLRDELLNGEVFYTLKEAGVVIEQWRTHYNSTRPHSALGYQPPAPEILIWPGEPSGSAPSSARPAIVMRPTMH
Blast result :
Comments
ISMdi16 is 83% aa similar to ISMex5.
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)