ISMch3
- Family IS3
- Group IS150
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_011758 | ND | Methylobacterium chloromethanicum | Methylobacterium chloromethanicum CM4 plasmid pMCHL01 |
DNA section
IS Length : 1510 bp
Ends
IR Length : 23/31
IRL : TGTCCGGCGTCAGCACTCTTGAGACAGATTGAGGGCCTTCACGAACGGAG
IRR : TGTCCGTCGTCAGATGATTTGAGACGGTTTGGGCTGCTCAGGAACGAAGG
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
GGCACCGATC | GCCTGCGGGC | 0 | |
CTTTCGACTT | TGCGCCGGTT | 0 |
DNA sequence
TGTCCGGCGTCAGCACTCTTGAGACAGATTGAGGGCCTTCACGAACGGAGGATGGCTGGTTCATCGTAGCCCCCAGGAGCGAAGATGAAGCAGCCATCCG
GGCCGGCACGGAAGCCGGCAGAAGCCGTCATCAAGGACATCCGCCGGGCCACGCGTCGGCAGTTCTCGTCCGAAGAGAAGATCCGCATCGTGCTGGAGGG
CCTGCGCGGCGAGGACAGCATCGCCGAGCTGTGCCGGCGCGAGGGCATTGCCAGCTCGATGTACTACGGCTGGTCCAAGGAGTTTCTGGAAGCCGGCAAG
AAGCGGCTGGCCGGCGACACCGCCCGTGCGGCGACCGCCGACGAGGTCAAGGATCTGCGCCGCGAGGCAGGCGCTCTGAAGGAGGTCGTAGCCGACCTCC
TCCTGGAAAATCGTCTGCTCAAAAAAAGCATGAGCGGGGCTGGGGGCGACGCGGCATGAGGTACCCGGCCTCCGAGAAGCTGGAGATCATCCGGCTGGTC
GAGCAATCCCACCTGCCGGTGCGCGTCACCCTGGAGAAGCTCGGCATCACCAGGGCAACGTTCTACCGGTGGTACGACGCCTATCAGCGCGGCGGCCCCG
AGGCCCTGGCTGATCGCCCCTCGCGGCCCAGCCGGGTCTGGAACCGGTTGCCGACAGAGATTCGCGAGCAGATCGTCACCCTCGCGCTGGAGGAGCCGGA
ACTCAGCCCGCGTGAGTTGGCGGTGCGCTTCACCGACGAGCGGCGGTACTTCGTCTCCGAGGCGACCGTCTACCGCCTGCTCAAGGCCCAGGACCTGATC
ACCAGCCCGGCCTACATCGTCGTCAAGGCAGCCGACGAGTTCCGCGACAAGACCACTGCGCCCAACCAACTCTGGCAGACGGACTTCACCTACCTGAAGG
TCGTCGGATGGGGCTGGTACTACCTCTCGACCATTCTCGATGACTTCTCACGCTACATCGTGGCATGGAAGCTGTGCACGACGATGCAGGCCAGCGACGT
CACCGCCACGCTTGATCTCGCGTTGGCGGCAGCCGAACTCGATCACGTGCAGGCGGTGCACCGGCCACGGCTGCTCACCGACAATGGATCGAGCTACGTC
GCTGGCGATCTGGCCGACTGGCTCGGCAGCCGGGGCATGACCCACATCCGCGGTGCGCCCCGCCATCCGCAGACGCAGGGCAAGATCGAGCGCTGGCACC
AGACGCTCAAGAACCGCATCCTGCTCGAACACGCCTACCTGCCAGGCGAGTTGGAGGCGCGTATCGCCGTCTTCGTCGAGCACTACAACCATGCCCGCGC
TCACGAGAGCCTCGGCAACCTCACCCCTGCCGACGTCTACTTTGGCCGCAGCGAGGCTATCCTGCAGGCACGGGCCCGGATCAAGCGTCAGACCCTCATC
GATCGCCGCTTGCGCCATCACGCGCAGGCCGCCTAACCTCTCAACCCAGATGGACCAGAGCCTTCGTTCCTGAGCAGCCCAAACCGTCTCAAATCATCTG
ACGACGGACA
GGCCGGCACGGAAGCCGGCAGAAGCCGTCATCAAGGACATCCGCCGGGCCACGCGTCGGCAGTTCTCGTCCGAAGAGAAGATCCGCATCGTGCTGGAGGG
CCTGCGCGGCGAGGACAGCATCGCCGAGCTGTGCCGGCGCGAGGGCATTGCCAGCTCGATGTACTACGGCTGGTCCAAGGAGTTTCTGGAAGCCGGCAAG
AAGCGGCTGGCCGGCGACACCGCCCGTGCGGCGACCGCCGACGAGGTCAAGGATCTGCGCCGCGAGGCAGGCGCTCTGAAGGAGGTCGTAGCCGACCTCC
TCCTGGAAAATCGTCTGCTCAAAAAAAGCATGAGCGGGGCTGGGGGCGACGCGGCATGAGGTACCCGGCCTCCGAGAAGCTGGAGATCATCCGGCTGGTC
GAGCAATCCCACCTGCCGGTGCGCGTCACCCTGGAGAAGCTCGGCATCACCAGGGCAACGTTCTACCGGTGGTACGACGCCTATCAGCGCGGCGGCCCCG
AGGCCCTGGCTGATCGCCCCTCGCGGCCCAGCCGGGTCTGGAACCGGTTGCCGACAGAGATTCGCGAGCAGATCGTCACCCTCGCGCTGGAGGAGCCGGA
ACTCAGCCCGCGTGAGTTGGCGGTGCGCTTCACCGACGAGCGGCGGTACTTCGTCTCCGAGGCGACCGTCTACCGCCTGCTCAAGGCCCAGGACCTGATC
ACCAGCCCGGCCTACATCGTCGTCAAGGCAGCCGACGAGTTCCGCGACAAGACCACTGCGCCCAACCAACTCTGGCAGACGGACTTCACCTACCTGAAGG
TCGTCGGATGGGGCTGGTACTACCTCTCGACCATTCTCGATGACTTCTCACGCTACATCGTGGCATGGAAGCTGTGCACGACGATGCAGGCCAGCGACGT
CACCGCCACGCTTGATCTCGCGTTGGCGGCAGCCGAACTCGATCACGTGCAGGCGGTGCACCGGCCACGGCTGCTCACCGACAATGGATCGAGCTACGTC
GCTGGCGATCTGGCCGACTGGCTCGGCAGCCGGGGCATGACCCACATCCGCGGTGCGCCCCGCCATCCGCAGACGCAGGGCAAGATCGAGCGCTGGCACC
AGACGCTCAAGAACCGCATCCTGCTCGAACACGCCTACCTGCCAGGCGAGTTGGAGGCGCGTATCGCCGTCTTCGTCGAGCACTACAACCATGCCCGCGC
TCACGAGAGCCTCGGCAACCTCACCCCTGCCGACGTCTACTTTGGCCGCAGCGAGGCTATCCTGCAGGCACGGGCCCGGATCAAGCGTCAGACCCTCATC
GATCGCCGCTTGCGCCATCACGCGCAGGCCGCCTAACCTCTCAACCCAGATGGACCAGAGCCTTCGTTCCTGAGCAGCCCAAACCGTCTCAAATCATCTG
ACGACGGACA
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 | |
---|---|---|---|---|---|
375 bp | 124 aa | 85 | 459 | + | No |
Description : First part of the transposase
ORF sequence :
MKQPSGPARKPAEAVIKDIRRATRRQFSSEEKIRIVLEGLRGEDSIAELCRREGIASSMYYGWSKEFLEAGKKRLAGDTARAATADEVKDLRREAGALKE
VVADLLLENRLLKKSMSGAGGDAA
VVADLLLENRLLKKSMSGAGGDAA
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1155 bp | 364 aa | 282 | 1436 | + | No |
Description : Second part of the transposase
ORF sequence :
VSGSRQPRGRRSEGGRSRPPPGKSSAQKKHERGWGRRGMRYPASEKLEIIRLVEQSHLPVRVTLEKLGITRATFYRWYDAYQRGGPEALADRPSRPSRVW
NRLPTEIREQIVTLALEEPELSPRELAVRFTDERRYFVSEATVYRLLKAQDLITSPAYIVVKAADEFRDKTTAPNQLWQTDFTYLKVVGWGWYYLSTILD
DFSRYIVAWKLCTTMQASDVTATLDLALAAAELDHVQAVHRPRLLTDNGSSYVAGDLADWLGSRGMTHIRGAPRHPQTQGKIERWHQTLKNRILLEHAYL
PGELEARIAVFVEHYNHARAHESLGNLTPADVYFGRSEAILQARARIKRQTLIDRRLRHHAQAA
NRLPTEIREQIVTLALEEPELSPRELAVRFTDERRYFVSEATVYRLLKAQDLITSPAYIVVKAADEFRDKTTAPNQLWQTDFTYLKVVGWGWYYLSTILD
DFSRYIVAWKLCTTMQASDVTATLDLALAAAELDHVQAVHRPRLLTDNGSSYVAGDLADWLGSRGMTHIRGAPRHPQTQGKIERWHQTLKNRILLEHAYL
PGELEARIAVFVEHYNHARAHESLGNLTPADVYFGRSEAILQARARIKRQTLIDRRLRHHAQAA
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1352 bp | 449 aa | 85 | 1436 | + | Yes |
Chemistry : DDE
ORF sequence :
MKQPSGPARKPAEAVIKDIRRATRRQFSSEEKIRIVLEGLRGEDSIAELCRREGIASSMYYGWSKEFLEAGKKRLAGDTARAATADEVKDLRREAGALKE
VVADLLLENRLLKKHERGWGRRGMRYPASEKLEIIRLVEQSHLPVRVTLEKLGITRATFYRWYDAYQRGGPEALADRPSRPSRVWNRLPTEIREQIVTLA
LEEPELSPRELAVRFTDERRYFVSEATVYRLLKAQDLITSPAYIVVKAADEFRDKTTAPNQLWQTDFTYLKVVGWGWYYLSTILDDFSRYIVAWKLCTTM
QASDVTATLDLALAAAELDHVQAVHRPRLLTDNGSSYVAGDLADWLGSRGMTHIRGAPRHPQTQGKIERWHQTLKNRILLEHAYLPGELEARIAVFVEHY
NHARAHESLGNLTPADVYFGRSEAILQARARIKRQTLIDRRLRHHAQAA
VVADLLLENRLLKKHERGWGRRGMRYPASEKLEIIRLVEQSHLPVRVTLEKLGITRATFYRWYDAYQRGGPEALADRPSRPSRVWNRLPTEIREQIVTLA
LEEPELSPRELAVRFTDERRYFVSEATVYRLLKAQDLITSPAYIVVKAADEFRDKTTAPNQLWQTDFTYLKVVGWGWYYLSTILDDFSRYIVAWKLCTTM
QASDVTATLDLALAAAELDHVQAVHRPRLLTDNGSSYVAGDLADWLGSRGMTHIRGAPRHPQTQGKIERWHQTLKNRILLEHAYLPGELEARIAVFVEHY
NHARAHESLGNLTPADVYFGRSEAILQARARIKRQTLIDRRLRHHAQAA
Blast result :
Comments
ISMch3 is 96% aa similar to ISMex16. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Ming-Chun Lee and David Robinson, direct submission.