ISMex5
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| ND | Methylobacterium extorquens | Methylobacterium extorquens AM1 Methylobacterium dichloromethanicum DM4 |
DNA section
IS Length : 1283 bp
Ends
IR Length : 20/25
IRL : TGATCCGCCCCCACTGAAGTGGTCCGCCCTGAGGTATGGCTTTTGAGCCA
IRR : TGATCGGCCCCCACGCGGTGGTCCAAGTTCTAAGTTAGTGCAGGGTCGGC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| CGTCCGGGTT | CGGGAGCAGC | 0 | |
| TTCACACAGC | GGATGACGCG | 0 | |
| CGCGCCCTAT | TTCTTCGGCC | 0 | |
| GCCCTGAACC | CGAT | GCCGGAGGGA | 4 |
DNA sequence
TGATCCGCCCCCACTGAAGTGGTCCGCCCTGAGGTATGGCTTTTGAGCCAGATGAGGACGGACAGATGGGAACGAAGCGGCACAAGCCGGAAGACGTGGT
CGCCAAGCTGCGGCAGGTGGATGTTCTGGTCTCGCAGGGCCAGAGCGTGGCGGAGGCGATCCGGGCCATCGGCGTGACGGAAGTGACCTACTACCGCTGG
CGCAAGGAGTACGGCGGCCTGAAGAGCGATCAGGTTCGACGGATGAAGGACTTGGAGGTTGAGAACCAGCGGCTGCGCAAGGCGATTGCGGATCTCACCC
TCGACAAGCTGATCCTGCAGGAGGCCGCTCGGGGAAACTGACCAGCCCCGCGCGCCGACGCGCCTGCATCGCGCATGTCATGAACGTCCTAGACGTCTCC
GAGCGCCGCGCCTGTCGGGCGCTCGGGCAGCATCGCTCGACGCAGCGCAAGGTGCCGCGGGGAAGAGAGGATGAGGCCGCGCTGACAGCCGACCTCGTGG
AACTGGCTCGCCAGTACGGGCGCTACGGCTACCGGAAGATCGGTGCATTGCTGAAGGCGGCGGGCTGGTTCGTCAACGACAAGCGGGTCGAACGGATCTG
GCGGCGCGAGGGGCTGAAGGTCCCGTCTCGGCAGCCCAAGCGCGGCCGCATCTGGGACGGGGATGGTTCCTGCCTGCGATTGCGGGCGGAGCGTCGCGAT
CACGTCTGGTCCTACGACTTTGTCGAAGCCCGCACGCACGAGGGCCGCAAGTTCCGGATGCTGAACGTGGTCGATGAGTTCACGCGGGAGTGCCTGGCGA
TCCGCGTCGCACGCAAGCTGAAGGCGGCGGACGTGATCGACGTGCTGTCCGACCTGTTCATCCTGCGCGGCGTGCCCGGCCATATCCGCTCGGACAACGG
TCCGGAGTTCATCGCCAAGTCCGTGCAGGCCTGGATCACCGGTGTCGGCGCCAGAACAGCCTACATCGCACCCGGCTCGCCATGGGAGAACGGTTACGTC
GAGAGCTTCAACGCACGACTACGGGACGAGCTTTTGAACGGTGAGATCTTCTACACGCTCAAGGAGGCGCAGATCGTGATCGAGAGTTGGCGTCTACACT
ACAACAGCGTGCGCCCGCACGCCTCGCTCGGCTACCGACCACCGGCCCCGGAGGTGTTCGTGCCGGCCTTCACCGCTTGGCCGGCTGCGCTCACCCGGTC
GGCTCCGCCGGCCAAGCGACCCGTGGAGCAAAGGCCGACCCTGCACTAACTTAGAACTTGGACCACCGCGTGGGGGCCGATCA
CGCCAAGCTGCGGCAGGTGGATGTTCTGGTCTCGCAGGGCCAGAGCGTGGCGGAGGCGATCCGGGCCATCGGCGTGACGGAAGTGACCTACTACCGCTGG
CGCAAGGAGTACGGCGGCCTGAAGAGCGATCAGGTTCGACGGATGAAGGACTTGGAGGTTGAGAACCAGCGGCTGCGCAAGGCGATTGCGGATCTCACCC
TCGACAAGCTGATCCTGCAGGAGGCCGCTCGGGGAAACTGACCAGCCCCGCGCGCCGACGCGCCTGCATCGCGCATGTCATGAACGTCCTAGACGTCTCC
GAGCGCCGCGCCTGTCGGGCGCTCGGGCAGCATCGCTCGACGCAGCGCAAGGTGCCGCGGGGAAGAGAGGATGAGGCCGCGCTGACAGCCGACCTCGTGG
AACTGGCTCGCCAGTACGGGCGCTACGGCTACCGGAAGATCGGTGCATTGCTGAAGGCGGCGGGCTGGTTCGTCAACGACAAGCGGGTCGAACGGATCTG
GCGGCGCGAGGGGCTGAAGGTCCCGTCTCGGCAGCCCAAGCGCGGCCGCATCTGGGACGGGGATGGTTCCTGCCTGCGATTGCGGGCGGAGCGTCGCGAT
CACGTCTGGTCCTACGACTTTGTCGAAGCCCGCACGCACGAGGGCCGCAAGTTCCGGATGCTGAACGTGGTCGATGAGTTCACGCGGGAGTGCCTGGCGA
TCCGCGTCGCACGCAAGCTGAAGGCGGCGGACGTGATCGACGTGCTGTCCGACCTGTTCATCCTGCGCGGCGTGCCCGGCCATATCCGCTCGGACAACGG
TCCGGAGTTCATCGCCAAGTCCGTGCAGGCCTGGATCACCGGTGTCGGCGCCAGAACAGCCTACATCGCACCCGGCTCGCCATGGGAGAACGGTTACGTC
GAGAGCTTCAACGCACGACTACGGGACGAGCTTTTGAACGGTGAGATCTTCTACACGCTCAAGGAGGCGCAGATCGTGATCGAGAGTTGGCGTCTACACT
ACAACAGCGTGCGCCCGCACGCCTCGCTCGGCTACCGACCACCGGCCCCGGAGGTGTTCGTGCCGGCCTTCACCGCTTGGCCGGCTGCGCTCACCCGGTC
GGCTCCGCCGGCCAAGCGACCCGTGGAGCAAAGGCCGACCCTGCACTAACTTAGAACTTGGACCACCGCGTGGGGGCCGATCA
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 | |
|---|---|---|---|---|---|
| 276 bp | 91 aa | 66 | 341 | + | No |
Description : First part of the transposase
ORF sequence :
MGTKRHKPEDVVAKLRQVDVLVSQGQSVAEAIRAIGVTEVTYYRWRKEYGGLKSDQVRRMKDLEVENQRLRKAIADLTLDKLILQEAARGN
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 987 bp | 328 aa | 263 | 1249 | + | No |
Description : Second part of the transposase
ORF sequence :
EPAAAQGDCGSHPRQADPAGGRSGKLTSPARRRACIAHVMNVLDVSERRACRALGQHRSTQRKVPRGREDEAALTADLVELARQYGRYGYRKIGALLKAA
GWFVNDKRVERIWRREGLKVPSRQPKRGRIWDGDGSCLRLRAERRDHVWSYDFVEARTHEGRKFRMLNVVDEFTRECLAIRVARKLKAADVIDVLSDLFI
LRGVPGHIRSDNGPEFIAKSVQAWITGVGARTAYIAPGSPWENGYVESFNARLRDELLNGEIFYTLKEAQIVIESWRLHYNSVRPHASLGYRPPAPEVFV
PAFTAWPAALTRSAPPAKRPVEQRPTLH
GWFVNDKRVERIWRREGLKVPSRQPKRGRIWDGDGSCLRLRAERRDHVWSYDFVEARTHEGRKFRMLNVVDEFTRECLAIRVARKLKAADVIDVLSDLFI
LRGVPGHIRSDNGPEFIAKSVQAWITGVGARTAYIAPGSPWENGYVESFNARLRDELLNGEIFYTLKEAQIVIESWRLHYNSVRPHASLGYRPPAPEVFV
PAFTAWPAALTRSAPPAKRPVEQRPTLH
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1184 bp | 394 aa | 66 | 1249 | + | Yes |
Chemistry : DDE
ORF sequence :
MGTKRHKPEDVVAKLRQVDVLVSQGQSVAEAIRAIGVTEVTYYRWRKEYGGLKSDQVRRMKDLEVENQRLRKAIADLTLDKLILQEAARGKLTSPARRRA
CIAHVMNVLDVSERRACRALGQHRSTQRKVPRGREDEAALTADLVELARQYGRYGYRKIGALLKAAGWFVNDKRVERIWRREGLKVPSRQPKRGRIWDGD
GSCLRLRAERRDHVWSYDFVEARTHEGRKFRMLNVVDEFTRECLAIRVARKLKAADVIDVLSDLFILRGVPGHIRSDNGPEFIAKSVQAWITGVGARTAY
IAPGSPWENGYVESFNARLRDELLNGEIFYTLKEAQIVIESWRLHYNSVRPHASLGYRPPAPEVFVPAFTAWPAALTRSAPPAKRPVEQRPTLH
CIAHVMNVLDVSERRACRALGQHRSTQRKVPRGREDEAALTADLVELARQYGRYGYRKIGALLKAAGWFVNDKRVERIWRREGLKVPSRQPKRGRIWDGD
GSCLRLRAERRDHVWSYDFVEARTHEGRKFRMLNVVDEFTRECLAIRVARKLKAADVIDVLSDLFILRGVPGHIRSDNGPEFIAKSVQAWITGVGARTAY
IAPGSPWENGYVESFNARLRDELLNGEIFYTLKEAQIVIESWRLHYNSVRPHASLGYRPPAPEVFVPAFTAWPAALTRSAPPAKRPVEQRPTLH
Blast result :
Comments
ISMex5 has 4 intact and 5 partial copies in AM1 and 4 partial copies in DM4.
ISMex5 is 81% aa similar to ISSpwi1. The third ORF is putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
ISMex5 is 81% aa similar to ISSpwi1. The third ORF is putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References