ISMsi3
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_011666 | ND | Methylocella silvestris | Methylocella silvestris BL2 |
DNA section
IS Length : 1107 bp
Ends
IR Length : 5/7
IRL : TGACCTGCTCCCGCTAAATTAGGCCATTCTGAACTGGAATTTTCCAATTA
IRR : TGACCTCATTATAGTCTCTACGCTAAACCTCCATTTTCTCCCGGGCGTCT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TTCAAACCGA | GGCGCTGGCC | 0 |
DNA sequence
TGACCTGCTCCCGCTAAATTAGGCCATTCTGAACTGGAATTTTCCAATTATGATCCCCGACCGGGACCAAGGAGAATTCCATGAAGGCAAGCAAGTTCAA
GGAGGCGCAGATCGCCCTCATTTTGAAGCAGGCGGAGGACGGCGTCGCCATCGCCGAGGTCTATCGCAAGGCGGGCATTTCGGATGCGACGTTTTACAAC
TGGCGCAAGAAATACGCCGGCCTGATGCCATCCGAGATGAAGCGGCTGCGCCAGCTCGAGGAAGAAAACGCCAAGCTGAAGCGGATCGTCGCTGACCTGT
CGCTCGACAAGGCCATGCTGCAGGATGTGCTATCAAAAAAGCTGTAAGGCCTGGCCGCAAGCGGGAGCTTGTCGACGCCGTTCGATCGGATTGGAAGGTG
TCGGTCAGGCGGGCCTGTTCGGCGCTACGCGTTGGTCGGGCGCTTTACGTCTACAAGTCGAAGCGTGGCGGCCAGGCCGACCTCAAACAGCGGATCAAGG
AGATTGCCGAAACGCGTGTGCGCTACGGCTATCGGTGCATTCACGTGCTGCTGCGGCGGGAAGGCTGGGCGGTGAACGCCAAGCGGATCTATCGGCTTTA
CAAGGATCTTGGCCTGCAATTGCTGAACAAGACGCCGAAGCGGCGCGTGAAGGCCAAACTGCGGGACGACCGATGCGCCGCCATGCAGCACAATGAAACC
TGGGCGATGGACTTTGTGCATGACCAACTGGCGACAGGCCGGAAGCTTCGGGTGTTGACTATAGTGGACACGTTTTCCCGGTTCTCTCCGGCTGTCGATC
CCCGCTTCTCCTATCGGGGCGAGGATGTCGTCTTGACCCTGGAGCGGATCTGCAGGAGGGTCGGCTATCCGAAGACGATCCGGGTGGATCAGGGCTCCGA
ATTCATCTCGCGCGAGACCTTGATCTGTGGGCCAATCAAAAAGGCGTCGTGCTCGACTTTTCGCGGCCTGGCAAGCCGACCGACAACGCTTTCATCGAGT
CGTTCAACGGCAAGTCCGCGCGGAATGCCTGAATGCCCATTGGTTCATGAGCCTCGAAGACGCCCGGGAGAAAATGGAGGTTTAGCGTAGAGACTATAAT
GAGGTCA
GGAGGCGCAGATCGCCCTCATTTTGAAGCAGGCGGAGGACGGCGTCGCCATCGCCGAGGTCTATCGCAAGGCGGGCATTTCGGATGCGACGTTTTACAAC
TGGCGCAAGAAATACGCCGGCCTGATGCCATCCGAGATGAAGCGGCTGCGCCAGCTCGAGGAAGAAAACGCCAAGCTGAAGCGGATCGTCGCTGACCTGT
CGCTCGACAAGGCCATGCTGCAGGATGTGCTATCAAAAAAGCTGTAAGGCCTGGCCGCAAGCGGGAGCTTGTCGACGCCGTTCGATCGGATTGGAAGGTG
TCGGTCAGGCGGGCCTGTTCGGCGCTACGCGTTGGTCGGGCGCTTTACGTCTACAAGTCGAAGCGTGGCGGCCAGGCCGACCTCAAACAGCGGATCAAGG
AGATTGCCGAAACGCGTGTGCGCTACGGCTATCGGTGCATTCACGTGCTGCTGCGGCGGGAAGGCTGGGCGGTGAACGCCAAGCGGATCTATCGGCTTTA
CAAGGATCTTGGCCTGCAATTGCTGAACAAGACGCCGAAGCGGCGCGTGAAGGCCAAACTGCGGGACGACCGATGCGCCGCCATGCAGCACAATGAAACC
TGGGCGATGGACTTTGTGCATGACCAACTGGCGACAGGCCGGAAGCTTCGGGTGTTGACTATAGTGGACACGTTTTCCCGGTTCTCTCCGGCTGTCGATC
CCCGCTTCTCCTATCGGGGCGAGGATGTCGTCTTGACCCTGGAGCGGATCTGCAGGAGGGTCGGCTATCCGAAGACGATCCGGGTGGATCAGGGCTCCGA
ATTCATCTCGCGCGAGACCTTGATCTGTGGGCCAATCAAAAAGGCGTCGTGCTCGACTTTTCGCGGCCTGGCAAGCCGACCGACAACGCTTTCATCGAGT
CGTTCAACGGCAAGTCCGCGCGGAATGCCTGAATGCCCATTGGTTCATGAGCCTCGAAGACGCCCGGGAGAAAATGGAGGTTTAGCGTAGAGACTATAAT
GAGGTCA
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 | |
|---|---|---|---|---|---|
| 267 bp | 88 aa | 81 | 347 | + | No |
Description : First part of the transposase
ORF sequence :
MKASKFKEAQIALILKQAEDGVAIAEVYRKAGISDATFYNWRKKYAGLMPSEMKRLRQLEEENAKLKRIVADLSLDKAMLQDVLSKKL
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 796 bp | 264 aa | 296 | 1091 | + | No |
Description : Second part of the transposase
ORF sequence :
PVARQGHAAGCAIKKAVRPGRKRELVDAVRSDWKMSVRRACSALRVGRALYVYKSKRGGQADLKQRIKEIAETRVRYGYRCIHVLLRREGWAVNAKRIYR
LYKDLGLQLLNKTPKRRVKAKLRDDRCAAMQHNETWAMDFVHDQLATGRKLRVLTIVDTFSRFSPAVDPRFSYRGEDVVLTLERICRRVGYPKTIRVDQG
SEFISRETLICGPIKKASCSTFRGLASRPTTLSSSRSTASPRGMPECPLVHEPRRRPGENGGLA
LYKDLGLQLLNKTPKRRVKAKLRDDRCAAMQHNETWAMDFVHDQLATGRKLRVLTIVDTFSRFSPAVDPRFSYRGEDVVLTLERICRRVGYPKTIRVDQG
SEFISRETLICGPIKKASCSTFRGLASRPTTLSSSRSTASPRGMPECPLVHEPRRRPGENGGLA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1011 bp | 336 aa | 81 | 1091 | + | Yes |
Chemistry : DDE
ORF sequence :
MKASKFKEAQIALILKQAEDGVAIAEVYRKAGISDATFYNWRKKYAGLMPSEMKRLRQLEEENAKLKRIVADLSLDKAMLQDVLSKKAVRPGRKRELVDA
VRSDWKMSVRRACSALRVGRALYVYKSKRGGQADLKQRIKEIAETRVRYGYRCIHVLLRREGWAVNAKRIYRLYKDLGLQLLNKTPKRRVKAKLRDDRCA
AMQHNETWAMDFVHDQLATGRKLRVLTIVDTFSRFSPAVDPRFSYRGEDVVLTLERICRRVGYPKTIRVDQGSEFISRETLICGPIKKASCSTFRGLASR
PTTLSSSRSTASPRGMPECPLVHEPRRRPGENGGLA
VRSDWKMSVRRACSALRVGRALYVYKSKRGGQADLKQRIKEIAETRVRYGYRCIHVLLRREGWAVNAKRIYRLYKDLGLQLLNKTPKRRVKAKLRDDRCA
AMQHNETWAMDFVHDQLATGRKLRVLTIVDTFSRFSPAVDPRFSYRGEDVVLTLERICRRVGYPKTIRVDQGSEFISRETLICGPIKKASCSTFRGLASR
PTTLSSSRSTASPRGMPECPLVHEPRRRPGENGGLA
Blast result :
Comments
ISMsi3 is 86 % aa similar to ISSisp1. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
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.