ISMdi1
- Family IS630
- Group
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| ND | Methylobacterium dichloromethanicum | Methylobacterium extorquens AM1 Methylobacterium dichloromethanicum DM4 |
DNA section
IS Length : 1058 bp
Ends
IR Length : 19/25
IRL : GAGCGAGATCCGAGCGGGTTGAATCGTCTGGGGTTTTGGCACGGACGGGG
IRR : GAGCGGCATTCGATCAGGTTGGATCATAGGCGTCGTAGCCTGCGGCCGCG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GGGCGCGTTC | TA | GCCGCATACG | 2 |
| ACCGTACAAC | TA | GCAGCTGGAT | 2 |
| GTCCGGAGCC | TA | GTATGAGTGC | 2 |
DNA sequence
GAGCGAGATCCGAGCGGGTTGAATCGTCTGGGGTTTTGGCACGGACGGGGATGTGATTCGATGTGCGGCCTTCCGATGAGGAGAGCCGCATGCCGTCTGC
CCTGTCCGCCGATCTGCGTGAGCGCGTCGTCACGGCTATCGAAGCAGGAGCCTCGCGCCGGGAGGCGGCGCGGCGCTTCGAGGTCAGCCCAGCCAGCGCG
GTGCGCTGGCACGAGAGCTTTGTGCAGGAGGGGCGGATACAGGCCAAGCCGATGGGCGGCGATCAGCGCTCACACGCGGTCGAGGCGCAGGCCGAGCTGA
TCCGACAGACCTACGAGGCACAGCCCGGAATATTCCTGCACGAACTGCGCGACCGTCTGGCCGAGCGTGGCCTGCGGGTCGGGGTGAGCAGCCTGTCACG
CTTCTTCAAGCGCCACGGCATCACGCGTAAAAAAACACCGGCCACGCGGCCGAGCAGGATCGGGAGGACGTGAAGGAAGCCCGCCTGGCCTGGTTCGAGA
GGCAACTCGATCTCGATCCGGACCGGCTCGTGTTCCTCGACGAGACCGCAACCAACACGAAGATGGCGCGGCGTTACGGGCGAGCGCCGCGCGGCGAGCG
GTGCCGCGTTGCCGTCCCCTTTGGGCATTGGAAAACCATCACCGTCACGGCCGGCCTACGCGCCAGCGGCCTGATGGCCACCGCCCTTTTCGACGGGCCG
ATGACCGGAGCCCGCTTCCGCGGCTATGTCGAGGAGACCCTGGTCCCGGCCCTGACGCGCGGCGACACAGTCGTGCTCGACAACCTGCCCGCCCACAAGG
TCGGCGGCATCCGCGAGCGCATCGAGGCGGCCGGCGCGCGGCTACTCTACCTGCCGGCCTACTCACCCGACTTCAATCCGATCGAACTCGTCTTCGCCAA
GCTCAAGGCAATTTTGCGCGCTGACGCAGCCCGCACGGTCAGCGAACTCTGGGACACCATCAAGCGCGCATTCAGGTGCTTCTCAACGGCCGAGTGCCGC
AACTATCTCGCGGCCGCAGGCTACGACGCCTATGATCCAACCTGATCGAATGCCGCTC
CCTGTCCGCCGATCTGCGTGAGCGCGTCGTCACGGCTATCGAAGCAGGAGCCTCGCGCCGGGAGGCGGCGCGGCGCTTCGAGGTCAGCCCAGCCAGCGCG
GTGCGCTGGCACGAGAGCTTTGTGCAGGAGGGGCGGATACAGGCCAAGCCGATGGGCGGCGATCAGCGCTCACACGCGGTCGAGGCGCAGGCCGAGCTGA
TCCGACAGACCTACGAGGCACAGCCCGGAATATTCCTGCACGAACTGCGCGACCGTCTGGCCGAGCGTGGCCTGCGGGTCGGGGTGAGCAGCCTGTCACG
CTTCTTCAAGCGCCACGGCATCACGCGTAAAAAAACACCGGCCACGCGGCCGAGCAGGATCGGGAGGACGTGAAGGAAGCCCGCCTGGCCTGGTTCGAGA
GGCAACTCGATCTCGATCCGGACCGGCTCGTGTTCCTCGACGAGACCGCAACCAACACGAAGATGGCGCGGCGTTACGGGCGAGCGCCGCGCGGCGAGCG
GTGCCGCGTTGCCGTCCCCTTTGGGCATTGGAAAACCATCACCGTCACGGCCGGCCTACGCGCCAGCGGCCTGATGGCCACCGCCCTTTTCGACGGGCCG
ATGACCGGAGCCCGCTTCCGCGGCTATGTCGAGGAGACCCTGGTCCCGGCCCTGACGCGCGGCGACACAGTCGTGCTCGACAACCTGCCCGCCCACAAGG
TCGGCGGCATCCGCGAGCGCATCGAGGCGGCCGGCGCGCGGCTACTCTACCTGCCGGCCTACTCACCCGACTTCAATCCGATCGAACTCGTCTTCGCCAA
GCTCAAGGCAATTTTGCGCGCTGACGCAGCCCGCACGGTCAGCGAACTCTGGGACACCATCAAGCGCGCATTCAGGTGCTTCTCAACGGCCGAGTGCCGC
AACTATCTCGCGGCCGCAGGCTACGACGCCTATGATCCAACCTGATCGAATGCCGCTC
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 | 90 | 473 | + | No |
Description : First part of the transposase
ORF sequence :
MPSALSADLRERVVTAIEAGASRREAARRFEVSPASAVRWHESFVQEGRIQAKPMGGDQRSHAVEAQAELIRQTYEAQPGIFLHELRDRLAERGLRVGVS
SLSRFFKRHGITRKKTPATRPSRIGRT
SLSRFFKRHGITRKKTPATRPSRIGRT
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 615 bp | 204 aa | 431 | 1045 | + | No |
Description : Second part of the transposase
ORF sequence :
KNTGHAAEQDREDVKEARLAWFERQLDLDPDRLVFLDETATNTKMARRYGRAPRGERCRVAVPFGHWKTITVTAGLRASGLMATALFDGPMTGARFRGYV
EETLVPALTRGDTVVLDNLPAHKVGGIRERIEAAGARLLYLPAYSPDFNPIELVFAKLKAILRADAARTVSELWDTIKRAFRCFSTAECRNYLAAAGYDA
YDPT
EETLVPALTRGDTVVLDNLPAHKVGGIRERIEAAGARLLYLPAYSPDFNPIELVFAKLKAILRADAARTVSELWDTIKRAFRCFSTAECRNYLAAAGYDA
YDPT
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 956 bp | 318 aa | 90 | 1045 | + | Yes |
Chemistry : DDE
ORF sequence :
MPSALSADLRERVVTAIEAGASRREAARRFEVSPASAVRWHESFVQEGRIQAKPMGGDQRSHAVEAQAELIRQTYEAQPGIFLHELRDRLAERGLRVGVS
SLSRFFKRHGITRKKNTGHAAEQDREDVKEARLAWFERQLDLDPDRLVFLDETATNTKMARRYGRAPRGERCRVAVPFGHWKTITVTAGLRASGLMATAL
FDGPMTGARFRGYVEETLVPALTRGDTVVLDNLPAHKVGGIRERIEAAGARLLYLPAYSPDFNPIELVFAKLKAILRADAARTVSELWDTIKRAFRCFST
AECRNYLAAAGYDAYDPT
SLSRFFKRHGITRKKNTGHAAEQDREDVKEARLAWFERQLDLDPDRLVFLDETATNTKMARRYGRAPRGERCRVAVPFGHWKTITVTAGLRASGLMATAL
FDGPMTGARFRGYVEETLVPALTRGDTVVLDNLPAHKVGGIRERIEAAGARLLYLPAYSPDFNPIELVFAKLKAILRADAARTVSELWDTIKRAFRCFST
AECRNYLAAAGYDAYDPT
Blast result :
Comments
ISMdi1 has 3 intact and 1 partial copies in DM4 and 1 partial copies in AM1.
ISMdi1 is 64% aa similar to ISRm10.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
ISMdi1 is 64% aa similar to ISRm10.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References