ISMtsp18
- Family IS3
- Group IS2
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_010511 | ND | Methylobacterium sp. | Methylobacterium sp. 4-46 |
DNA section
IS Length : 1341 bp
Ends
IR Length : 27/33
IRL : TGAACTGCACCCCGTTTTGACCGGACAGGCGGCATAGCCCAGGAAGGCAT
IRR : TGGAGTGCACCCAGTTTGACCGGACAGGTAGCGGGGTAGGTTTAGGCACT
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
ATTTCAAGCA | CTTAG | CGGGCTCGAA | 5 |
DNA sequence
TGAACTGCACCCCGTTTTGACCGGACAGGCGGCATAGCCCAGGAAGGCATAGGCGCAGGCCTATGGATAAGGCTATGGCATCTGATCCGATCGCCCCGCC
TCCGCACGGCGAGATCCTGACCGGTGTGCAGCGCCGCCGGCGGTGGTCCACGGCCGAGAAGATCCGCCTCGTCGAGGAGAGCCAGCAGCCCGGCTCGTCC
GTGTCCTTCGTGGCGCGGCGCTACGGGCTGTCGCCCAGCCTGCTGTTCCGGTGGAAGCGGCGCTTGCTGGAAGGCGGGCATGCGGCTGTTCAGGCCGATG
AGGAGGTCGTCGGCACCAGCCGGGTGCGCGAGCTGGAGCGGCGCGTGCGGGACTTGGAACGCCTGCTCGGGCGCAAGACCATGGAGGTCGAGATCCTCAA
GGAGGCGCTCGACCTCGCACGCACAAAAAAACCGACCTTGCCGCTCGTCTCCTGGGGCGGGCCGGTGGGCGGTTCCCGATGAAGGCGGTCGCCGACACGC
TGGGCGTGGCTCGCTCCCATCTCGCCGAGCGCCTCACCCGCCCCGTCCGGCCGCGTGGTCCCTCCCGCAGGCCCCAGGACGCCGTGTTGCTGCCCACCAT
CCGCGAGATCGTCGCGGCCCGTCCCAGCTACGGCTACCGGCGTATCACCGCGCTGCTGAACAGGGTGCTGCGCTCGCAAGGCGCGTCGGTCGTCAACGCC
AAGCGGGTGCTGCGCATCCTCCAGGTGAACGGGCTGACGCTGGCGCCCTATACCGCTCGCCGCACCGGCCGGACCCATGACGGTGTCGTGGTCGCGCTGC
GCTCGAACGTGCGCTGGTGCTCGGACCATCTCGACCTGCGCTGCCGGGACGGAGCGGTGGTCCGGGTGCTGTTTGCCATCGACGCCTGCGACCGTGAGAT
CATGGCTTGGTCGGCGACCACGGCCGGCGTCTCCGGCGAGATGGTCAGCAACCTGATGATCGCCTGCGTCGAGCACCGCTTCGGCGCGACGAAGGCCCCG
CACCCGATCGAGTGGCTGTCCGACAACGGCTCGGCTTACATCGCCCGCCAGACGAGCGAGACGGCCACCGCGCTCGGGCTGCGGCTGCTGTTCACACCGG
TGCGCTCCCCGCAGAGCAACGGCATTGCCGAAGCCTTCGTGAAAACGCTCAAGCGTGACTACGCACGCCTTGCGATGCTGCCCGACGCCGAGACCGTGAT
GCGGCTTCTGCCGAGTTGGTTCGAGGACTACAACACCGTCCACCCGCACTCCGGTTTGCGTATGCTCTCGCCTCGCGAGTTCATCAGCCAGAGTGCCTAA
ACCTACCCCGCTACCTGTCCGGTCAAACTGGGTGCACTCCA
TCCGCACGGCGAGATCCTGACCGGTGTGCAGCGCCGCCGGCGGTGGTCCACGGCCGAGAAGATCCGCCTCGTCGAGGAGAGCCAGCAGCCCGGCTCGTCC
GTGTCCTTCGTGGCGCGGCGCTACGGGCTGTCGCCCAGCCTGCTGTTCCGGTGGAAGCGGCGCTTGCTGGAAGGCGGGCATGCGGCTGTTCAGGCCGATG
AGGAGGTCGTCGGCACCAGCCGGGTGCGCGAGCTGGAGCGGCGCGTGCGGGACTTGGAACGCCTGCTCGGGCGCAAGACCATGGAGGTCGAGATCCTCAA
GGAGGCGCTCGACCTCGCACGCACAAAAAAACCGACCTTGCCGCTCGTCTCCTGGGGCGGGCCGGTGGGCGGTTCCCGATGAAGGCGGTCGCCGACACGC
TGGGCGTGGCTCGCTCCCATCTCGCCGAGCGCCTCACCCGCCCCGTCCGGCCGCGTGGTCCCTCCCGCAGGCCCCAGGACGCCGTGTTGCTGCCCACCAT
CCGCGAGATCGTCGCGGCCCGTCCCAGCTACGGCTACCGGCGTATCACCGCGCTGCTGAACAGGGTGCTGCGCTCGCAAGGCGCGTCGGTCGTCAACGCC
AAGCGGGTGCTGCGCATCCTCCAGGTGAACGGGCTGACGCTGGCGCCCTATACCGCTCGCCGCACCGGCCGGACCCATGACGGTGTCGTGGTCGCGCTGC
GCTCGAACGTGCGCTGGTGCTCGGACCATCTCGACCTGCGCTGCCGGGACGGAGCGGTGGTCCGGGTGCTGTTTGCCATCGACGCCTGCGACCGTGAGAT
CATGGCTTGGTCGGCGACCACGGCCGGCGTCTCCGGCGAGATGGTCAGCAACCTGATGATCGCCTGCGTCGAGCACCGCTTCGGCGCGACGAAGGCCCCG
CACCCGATCGAGTGGCTGTCCGACAACGGCTCGGCTTACATCGCCCGCCAGACGAGCGAGACGGCCACCGCGCTCGGGCTGCGGCTGCTGTTCACACCGG
TGCGCTCCCCGCAGAGCAACGGCATTGCCGAAGCCTTCGTGAAAACGCTCAAGCGTGACTACGCACGCCTTGCGATGCTGCCCGACGCCGAGACCGTGAT
GCGGCTTCTGCCGAGTTGGTTCGAGGACTACAACACCGTCCACCCGCACTCCGGTTTGCGTATGCTCTCGCCTCGCGAGTTCATCAGCCAGAGTGCCTAA
ACCTACCCCGCTACCTGTCCGGTCAAACTGGGTGCACTCCA
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 | |
---|---|---|---|---|---|
420 bp | 139 aa | 63 | 482 | + | No |
Description : First part of the transposase
ORF sequence :
MDKAMASDPIAPPPHGEILTGVQRRRRWSTAEKIRLVEESQQPGSSVSFVARRYGLSPSLLFRWKRRLLEGGHAAVQADEEVVGTSRVRELERRVRDLER
LLGRKTMEVEILKEALDLARTKKPTLPLVSWGGPVGGSR
LLGRKTMEVEILKEALDLARTKKPTLPLVSWGGPVGGSR
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
999 bp | 332 aa | 302 | 1300 | + | No |
Description : Second part of the transposase
ORF sequence :
GGRRHQPGARAGAARAGLGTPARAQDHGGRDPQGGARPRTHKKTDLAARLLGRAGGRFPMKAVADTLGVARSHLAERLTRPVRPRGPSRRPQDAVLLPTI
REIVAARPSYGYRRITALLNRVLRSQGASVVNAKRVLRILQVNGLTLAPYTARRTGRTHDGVVVALRSNVRWCSDHLDLRCRDGAVVRVLFAIDACDREI
MAWSATTAGVSGEMVSNLMIACVEHRFGATKAPHPIEWLSDNGSAYIARQTSETATALGLRLLFTPVRSPQSNGIAEAFVKTLKRDYARLAMLPDAETVM
RLLPSWFEDYNTVHPHSGLRMLSPREFISQSA
REIVAARPSYGYRRITALLNRVLRSQGASVVNAKRVLRILQVNGLTLAPYTARRTGRTHDGVVVALRSNVRWCSDHLDLRCRDGAVVRVLFAIDACDREI
MAWSATTAGVSGEMVSNLMIACVEHRFGATKAPHPIEWLSDNGSAYIARQTSETATALGLRLLFTPVRSPQSNGIAEAFVKTLKRDYARLAMLPDAETVM
RLLPSWFEDYNTVHPHSGLRMLSPREFISQSA
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1238 bp | 412 aa | 63 | 1300 | + | Yes |
Chemistry : DDE
ORF sequence :
MDKAMASDPIAPPPHGEILTGVQRRRRWSTAEKIRLVEESQQPGSSVSFVARRYGLSPSLLFRWKRRLLEGGHAAVQADEEVVGTSRVRELERRVRDLER
LLGRKTMEVEILKEALDLARTKKTDLAARLLGRAGGRFPMKAVADTLGVARSHLAERLTRPVRPRGPSRRPQDAVLLPTIREIVAARPSYGYRRITALLN
RVLRSQGASVVNAKRVLRILQVNGLTLAPYTARRTGRTHDGVVVALRSNVRWCSDHLDLRCRDGAVVRVLFAIDACDREIMAWSATTAGVSGEMVSNLMI
ACVEHRFGATKAPHPIEWLSDNGSAYIARQTSETATALGLRLLFTPVRSPQSNGIAEAFVKTLKRDYARLAMLPDAETVMRLLPSWFEDYNTVHPHSGLR
MLSPREFISQSA
LLGRKTMEVEILKEALDLARTKKTDLAARLLGRAGGRFPMKAVADTLGVARSHLAERLTRPVRPRGPSRRPQDAVLLPTIREIVAARPSYGYRRITALLN
RVLRSQGASVVNAKRVLRILQVNGLTLAPYTARRTGRTHDGVVVALRSNVRWCSDHLDLRCRDGAVVRVLFAIDACDREIMAWSATTAGVSGEMVSNLMI
ACVEHRFGATKAPHPIEWLSDNGSAYIARQTSETATALGLRLLFTPVRSPQSNGIAEAFVKTLKRDYARLAMLPDAETVMRLLPSWFEDYNTVHPHSGLR
MLSPREFISQSA
Blast result :
Comments
ISMtsp18 is 75% aa similar to IS426.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
References
1] Ming-Chun Lee and David Robinson (2009) Direct submission.
2] Copeland,A., Lucas,S., Lapidus,A., Glavina del Rio,T., Dalin,E.,Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Chertkov,O., Brettin,T.,Detter,J.C., Han,C., Kuske,C.R., Schmutz,J., Larimer,F., Land,M.,Hauser,L., Kyrpides,N., Ivanova,N., Marx,C.J. and Richardson,P. (2008) Direct submission GenBank.
2] Copeland,A., Lucas,S., Lapidus,A., Glavina del Rio,T., Dalin,E.,Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Chertkov,O., Brettin,T.,Detter,J.C., Han,C., Kuske,C.R., Schmutz,J., Larimer,F., Land,M.,Hauser,L., Kyrpides,N., Ivanova,N., Marx,C.J. and Richardson,P. (2008) Direct submission GenBank.