ISMsi5
- Family IS3
- Group IS3
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_011666 | ND | Methylocella silvestris | Methylocella silvestris BL2 |
DNA section
IS Length : 1228 bp
Ends
IR Length : 22/32
IRL : TGGACTTGCTCCGAAAAATGGGAAGCTCTTCTGAGGAAAAGAGGAGCATT
IRR : TGGACTTGCCGCGAGAAAGTGGAAAGCCTTTTCGACTCTACGCGGCCCGC
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CCGGTCACCC | GATGGCGGCG | 0 |
DNA sequence
TGGACTTGCTCCGAAAAATGGGAAGCTCTTCTGAGGAAAAGAGGAGCATTTTATGGGCAAGCCGCAGCGCCGGTTCGGGAAGGAATTCGAGGCGGAAGCC
ATTCGTCTGGCCGAGACGAGCGGCCGAACGCAGCGTGAGATCGCCGAGGATCTCGGTATCGGGCTGTCGACCTTGCGCCGTTGGCTCGACAAGCGTCGGG
AGCATGATTTCGAAGCGCCGCCTCCCGAGCGGCAGGAGGATCTTGCGGCCGATTTGAAGCGTCTGCGGCGTGAGAACGAAATTCTGCGCCAGGAGCGCGG
GATCCTGAAGAGGGCCGCGACTTTTTTCGCCAAGGAGGGAAGTCGATGAGATTTGAGCTCATCGATGCGGCGAAGGAAGAGTTCCCCGTCCTGCGTATGT
GCAAGGTGCTCGGCGGCAGCGCCAGCGGGTATTTCGCCTGGAGGGAGCGCCCGGCCTGCCGCCGGCAGAAGGGCGACATGGTGTTGCTCGCCCATGTCCG
CTCGGCCTTCGCCTTATCGAATGAGACCTACGGCAGCCCCCGCATGCTGCGCGAACTGCGCGACAATGGTCTGTCGATCGGGCGTCGGCGCGTCGCCCGG
CTGATGCGAGAGAACGGGCTAGAGGCGCGGCAGAACGGCGCTTCAAGCGCACCACCGATAGCCTCCACGCCTTCCCGGTCGCTCCAAATCTCCTGGATCA
GGACTTCGCCGCGGCAGGCCGAACCAGAAGTGGGCGCCGATATCTCCTACGTTTGGACGCGGGCGGGATGGCTTTACCTTGCCGTCGTTATCGACCTCTT
CGCCCGGCGCATCGTCGGTTGGGCGACGAGCGACCGCCTCCATAAGGAACTGGCTTTGTCGGCGCTGCGTCGCGCCATTGCTTGGCGGCGACCCGGCGCC
GGGCTCATCCATCACGCGGATCGCGGCAGCACTGCGCTATCGACTACCAGGCTGAGCTGCGCCGCAGGGGCATCCTGATCTCGATGTCGGGCAAGGGAAA
CTGCTACGACAATGCGATGGTCGAAACCTTCTTCAAGACGCTGAAGACCGAACTCGTCTGGCGCACCGTCTTCCAGGACAGAGGCAACCGCCGCAATCGG
TCGTTATATCGACGGGTTCTACAACCCCGTCCGGCGACATTTGGCACTCGACTTCATCAACCCGCTCCAATTTGAGAGGCGGGCCGCGTAGAGTCGAAAA
GGCTTTCCACTTTCTCGCGGCAAGTCCA
ATTCGTCTGGCCGAGACGAGCGGCCGAACGCAGCGTGAGATCGCCGAGGATCTCGGTATCGGGCTGTCGACCTTGCGCCGTTGGCTCGACAAGCGTCGGG
AGCATGATTTCGAAGCGCCGCCTCCCGAGCGGCAGGAGGATCTTGCGGCCGATTTGAAGCGTCTGCGGCGTGAGAACGAAATTCTGCGCCAGGAGCGCGG
GATCCTGAAGAGGGCCGCGACTTTTTTCGCCAAGGAGGGAAGTCGATGAGATTTGAGCTCATCGATGCGGCGAAGGAAGAGTTCCCCGTCCTGCGTATGT
GCAAGGTGCTCGGCGGCAGCGCCAGCGGGTATTTCGCCTGGAGGGAGCGCCCGGCCTGCCGCCGGCAGAAGGGCGACATGGTGTTGCTCGCCCATGTCCG
CTCGGCCTTCGCCTTATCGAATGAGACCTACGGCAGCCCCCGCATGCTGCGCGAACTGCGCGACAATGGTCTGTCGATCGGGCGTCGGCGCGTCGCCCGG
CTGATGCGAGAGAACGGGCTAGAGGCGCGGCAGAACGGCGCTTCAAGCGCACCACCGATAGCCTCCACGCCTTCCCGGTCGCTCCAAATCTCCTGGATCA
GGACTTCGCCGCGGCAGGCCGAACCAGAAGTGGGCGCCGATATCTCCTACGTTTGGACGCGGGCGGGATGGCTTTACCTTGCCGTCGTTATCGACCTCTT
CGCCCGGCGCATCGTCGGTTGGGCGACGAGCGACCGCCTCCATAAGGAACTGGCTTTGTCGGCGCTGCGTCGCGCCATTGCTTGGCGGCGACCCGGCGCC
GGGCTCATCCATCACGCGGATCGCGGCAGCACTGCGCTATCGACTACCAGGCTGAGCTGCGCCGCAGGGGCATCCTGATCTCGATGTCGGGCAAGGGAAA
CTGCTACGACAATGCGATGGTCGAAACCTTCTTCAAGACGCTGAAGACCGAACTCGTCTGGCGCACCGTCTTCCAGGACAGAGGCAACCGCCGCAATCGG
TCGTTATATCGACGGGTTCTACAACCCCGTCCGGCGACATTTGGCACTCGACTTCATCAACCCGCTCCAATTTGAGAGGCGGGCCGCGTAGAGTCGAAAA
GGCTTTCCACTTTCTCGCGGCAAGTCCA
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 | |
---|---|---|---|---|---|
297 bp | 98 aa | 53 | 349 | + | No |
Description : First part of the transposase
ORF sequence :
MGKPQRRFGKEFEAEAIRLAETSGRTQREIAEDLGIGLSTLRRWLDKRREHDFEAPPPERQEDLAADLKRLRRENEILRQERGILKRAATFFAKEGSR
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
918 bp | 305 aa | 274 | 1191 | + | No |
Description : Second part of the transposase
ORF sequence :
ERNSAPGARDPEEGRDFFRQGGKSMRFELIDAAKEEFPVLRMCKVLGGSASGYFAWRERPACRRQKGDMVLLAHVRSAFALSNETYGSPRMLRELRDNGL
SIGRRRVARLMRENGLEARQNGASSAPPIASTPSRSLQISWIRTSPRQAEPEVGADISYVWTRAGWLYLAVVIDLFARRIVGWATSDRLHKELALSALRR
AIAWRRPGAGLIHHADRGSTALSTTRLSCAAGAS*SRCRARETATTMRWSKPSSRR*RPNSSGAPSSRTEATAAIGRYIDGFYNPVRRHLALDFINPLQF
ERRAA
SIGRRRVARLMRENGLEARQNGASSAPPIASTPSRSLQISWIRTSPRQAEPEVGADISYVWTRAGWLYLAVVIDLFARRIVGWATSDRLHKELALSALRR
AIAWRRPGAGLIHHADRGSTALSTTRLSCAAGAS*SRCRARETATTMRWSKPSSRR*RPNSSGAPSSRTEATAAIGRYIDGFYNPVRRHLALDFINPLQF
ERRAA
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1139 bp | 379 aa | 53 | 1191 | + | Yes |
Chemistry : DDE
ORF sequence :
MGKPQRRFGKEFEAEAIRLAETSGRTQREIAEDLGIGLSTLRRWLDKRREHDFEAPPPERQEDLAADLKRLRRENEILRQERGILKRAATFFRQGGKSMR
FELIDAAKEEFPVLRMCKVLGGSASGYFAWRERPACRRQKGDMVLLAHVRSAFALSNETYGSPRMLRELRDNGLSIGRRRVARLMRENGLEARQNGASSA
PPIASTPSRSLQISWIRTSPRQAEPEVGADISYVWTRAGWLYLAVVIDLFARRIVGWATSDRLHKELALSALRRAIAWRRPGAGLIHHADRGSTALSTTR
LSCAAGAS*SRCRARETATTMRWSKPSSRR*RPNSSGAPSSRTEATAAIGRYIDGFYNPVRRHLALDFINPLQFERRAA
FELIDAAKEEFPVLRMCKVLGGSASGYFAWRERPACRRQKGDMVLLAHVRSAFALSNETYGSPRMLRELRDNGLSIGRRRVARLMRENGLEARQNGASSA
PPIASTPSRSLQISWIRTSPRQAEPEVGADISYVWTRAGWLYLAVVIDLFARRIVGWATSDRLHKELALSALRRAIAWRRPGAGLIHHADRGSTALSTTR
LSCAAGAS*SRCRARETATTMRWSKPSSRR*RPNSSGAPSSRTEATAAIGRYIDGFYNPVRRHLALDFINPLQFERRAA
Blast result :
Comments
ISMsi5 is 66% aa similar to ISNisp1. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
The ORFB contains two STOP codons in frame.
The ORFB contains two STOP codons in frame.
References
1] ISfinder annotation (2009)
2] Lucas,S., Lucas,S., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Forester,B., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Ovchinnikova,G., Dunfield,P.F., Dedysh,S.N., Liesack,W., Stott,M.B., Smirnova,A.V., Alam,M., Chen,Y., Murrell,J.C. and Richardson,P. (2008) Direct submission GenBank.
2] Lucas,S., Lucas,S., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Forester,B., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Ovchinnikova,G., Dunfield,P.F., Dedysh,S.N., Liesack,W., Stott,M.B., Smirnova,A.V., Alam,M., Chen,Y., Murrell,J.C. and Richardson,P. (2008) Direct submission GenBank.