ISMex30
- Family IS630
- Group
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| ND | Methylobacterium extorquens | Methylobacterium extorquens AM1 Methylobacterium dichloromethanicum DM4 |
DNA section
IS Length : 1047 bp
Ends
IR Length : 18/27
IRL : GAGCCGGTCCCACGCCGCTTGAGACGGGTTTGCGGGTAGCGCGTTGGTGG
IRR : GAGCTGTTCCCGGTCAGGTAGCGACGGCCAAGTCGTCTTCGTAGCCAGCT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GCTCGGGGGC | TA | GTTGCGAGGC | 2 |
| GCTCGGGGGC | TA | GTTGCGAGGC | 2 |
DNA sequence
GAGCCGGTCCCACGCCGCTTGAGACGGGTTTGCGGGTAGCGCGTTGGTGGGTGAAGGAGTTTGCTCATGCCTTCACCCCTGTCTGTGGACCTGCGCGAGC
GTGTCGTGGCTGCCGTGGCGGCGGGGGCTTCCTGCCATCGCACCGCAGCCCGCTTCGGGGTCAGCGTGTCGAGCGCCAGCCGCTGGTCGGAGCGCTTCCG
CCACGAGGGCCAACTCGCCTCCAAGCCGATGGGCGGCGATCACACCTCGAAGCGAATAGAGGCGCATGCCGGGCTGATCCTGAGGATCTCCAAGCAGGAG
CCGCGTCTTTTCCTGCGCGAGTTACGCGATCGGCTGGCTGAGCAGGGCATCCAGACCAGCACGAGCGGCCTGTCGCGCTTCTTTGCCCGCCACGGGATCA
GCTGGAAAAAGGGGCAACGTACGCAGCTGAGCAGGAGCGCGCGGACGTAAGAGCGGCTCGCGAGGCGTGGTTCGAGGCACAGCCCGAGTTCGATCCGGAT
CGGCTGGTGTTCCTGGATGAGACGGCGGCTGCCACCAACATGGCGCGCCGCTATGGTTGGGCTCCGTGCGGTGAGCGCTGCCGACTCGCAGCCCCGTTGG
GCCACTACAAAACCACCACCGTCACCGCCGCCCTGCGCACCAGCGGGCTGTGTGCCACCGCGCTATTGGATGGCCCCACGAACGGCAGGCGCTTCCGCAG
CTACCTCACCGAGACCCTGATCCCGGTGCTGCAGCCGGGCGACATCGTCGTTATGGATAACCTGCCGGCCCACAAGGTCGCCGGCGTGCAGGACGCGATC
GAGGCCGCAGGAGCGCGATTGCTCTACCTTCCGTCCTACAGCCCTGATTTCAACCCGATTGAGCAGGCCTTCGCGAAGCTGAAGGCGCTGCTACGCAGCG
CGGCAGCCCGCACGATCCCGGATCTCTGGGCTGCGATCCGCCAGGCATTCACGCGCTTCACTCCGCAGGAGTGCCGCAACTACCTCGCCGCAGCTGGCTA
CGAAGACGACTTGGCCGTCGCTACCTGACCGGGAACAGCTC
GTGTCGTGGCTGCCGTGGCGGCGGGGGCTTCCTGCCATCGCACCGCAGCCCGCTTCGGGGTCAGCGTGTCGAGCGCCAGCCGCTGGTCGGAGCGCTTCCG
CCACGAGGGCCAACTCGCCTCCAAGCCGATGGGCGGCGATCACACCTCGAAGCGAATAGAGGCGCATGCCGGGCTGATCCTGAGGATCTCCAAGCAGGAG
CCGCGTCTTTTCCTGCGCGAGTTACGCGATCGGCTGGCTGAGCAGGGCATCCAGACCAGCACGAGCGGCCTGTCGCGCTTCTTTGCCCGCCACGGGATCA
GCTGGAAAAAGGGGCAACGTACGCAGCTGAGCAGGAGCGCGCGGACGTAAGAGCGGCTCGCGAGGCGTGGTTCGAGGCACAGCCCGAGTTCGATCCGGAT
CGGCTGGTGTTCCTGGATGAGACGGCGGCTGCCACCAACATGGCGCGCCGCTATGGTTGGGCTCCGTGCGGTGAGCGCTGCCGACTCGCAGCCCCGTTGG
GCCACTACAAAACCACCACCGTCACCGCCGCCCTGCGCACCAGCGGGCTGTGTGCCACCGCGCTATTGGATGGCCCCACGAACGGCAGGCGCTTCCGCAG
CTACCTCACCGAGACCCTGATCCCGGTGCTGCAGCCGGGCGACATCGTCGTTATGGATAACCTGCCGGCCCACAAGGTCGCCGGCGTGCAGGACGCGATC
GAGGCCGCAGGAGCGCGATTGCTCTACCTTCCGTCCTACAGCCCTGATTTCAACCCGATTGAGCAGGCCTTCGCGAAGCTGAAGGCGCTGCTACGCAGCG
CGGCAGCCCGCACGATCCCGGATCTCTGGGCTGCGATCCGCCAGGCATTCACGCGCTTCACTCCGCAGGAGTGCCGCAACTACCTCGCCGCAGCTGGCTA
CGAAGACGACTTGGCCGTCGCTACCTGACCGGGAACAGCTC
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 | |
|---|---|---|---|---|---|
| 384 bp | 127 aa | 67 | 450 | + | No |
Description : First part of the transposase
ORF sequence :
MPSPLSVDLRERVVAAVAAGASCHRTAARFGVSVSSASRWSERFRHEGQLASKPMGGDHTSKRIEAHAGLILRISKQEPRLFLRELRDRLAEQGIQTSTS
GLSRFFARHGISWKKGQRTQLSRSART
GLSRFFARHGISWKKGQRTQLSRSART
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 687 bp | 228 aa | 342 | 1028 | + | No |
Description : Second part of the transposase
ORF sequence :
AGHPDQHERPVALLCPPRDQLEKGATYAAEQERADVRAAREAWFEAQPEFDPDRLVFLDETAAATNMARRYGWAPCGERCRLAAPLGHYKTTTVTAALRT
SGLCATALLDGPTNGRRFRSYLTETLIPVLQPGDIVVMDNLPAHKVAGVQDAIEAAGARLLYLPSYSPDFNPIEQAFAKLKALLRSAAARTIPDLWAAIR
QAFTRFTPQECRNYLAAAGYEDDLAVAT
SGLCATALLDGPTNGRRFRSYLTETLIPVLQPGDIVVMDNLPAHKVAGVQDAIEAAGARLLYLPSYSPDFNPIEQAFAKLKALLRSAAARTIPDLWAAIR
QAFTRFTPQECRNYLAAAGYEDDLAVAT
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 962 bp | 320 aa | 67 | 1028 | + | Yes |
Chemistry : DDE
ORF sequence :
MPSPLSVDLRERVVAAVAAGASCHRTAARFGVSVSSASRWSERFRHEGQLASKPMGGDHTSKRIEAHAGLILRISKQEPRLFLRELRDRLAEQGIQTSTS
GLSRFFARHGISWKKGATYAAEQERADVRAAREAWFEAQPEFDPDRLVFLDETAAATNMARRYGWAPCGERCRLAAPLGHYKTTTVTAALRTSGLCATAL
LDGPTNGRRFRSYLTETLIPVLQPGDIVVMDNLPAHKVAGVQDAIEAAGARLLYLPSYSPDFNPIEQAFAKLKALLRSAAARTIPDLWAAIRQAFTRFTP
QECRNYLAAAGYEDDLAVAT
GLSRFFARHGISWKKGATYAAEQERADVRAAREAWFEAQPEFDPDRLVFLDETAAATNMARRYGWAPCGERCRLAAPLGHYKTTTVTAALRTSGLCATAL
LDGPTNGRRFRSYLTETLIPVLQPGDIVVMDNLPAHKVAGVQDAIEAAGARLLYLPSYSPDFNPIEQAFAKLKALLRSAAARTIPDLWAAIRQAFTRFTP
QECRNYLAAAGYEDDLAVAT
Blast result :
Comments
ISMex30 is 84% aa similar to ISMex21.
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)