ISStma14

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_010943 ND Stenotrophomonas maltophilia
Stenotrophomonas maltophilia K279a
DNA section
IS Length : 1231 bp

Ends


IR Length : 22/33

IRL : TGAAAGGGTTCATCCCCGTTTTCACGGACACTTACAAGAAGGCCGATTCA
IRR : TCGGGTTCTACCCCGAAATCACGGACGGTTCTAAAAGAGCTGCAACCTTC

Insertion site


Left flankDirect repeatRight flankDR Length
TTCTGAAAACTCGTGCCATC0

DNA sequence

TGAAAGGGTTCATCCCCGTTTTCACGGACACTTACAAGAAGGCCGATTCAGGCCATGAGGAGTGTTCATGTCGAAGCGAAGGAAGTTCAGCGCCGAGTTC
AAGCGTGGTGCGGTGGAGCAGGCAAGCCAGTCGGGTGTGAGCTGCGCCCAGGTAGCCCGGGAGCTGGGAATCCGGGATACGTTACTGACACGCTGGAAGC
GTGAGGCGCAGGGTCAGGGGTCAGTCGTATTTGCTGGTGCCGGGACGCCCCGGGACGAGGAGCTTGCGCAGTTGAAGCGCGAACTAGCCCGGGTGAAGAA
GGAGCGGGATTTTTTGCGAGAAGCGGCGACGTTCTTTGCCAAGGGATCATCCTGAGGTATCAGGTGATCGAACGTTGCCGCGACGAGTTTCCGGTTCGAC
TGATGTGCCGCTGTCTGAAGGTGTCGGCCAGTGGCTATTACGATTGGAGCAAGCGCCTGCCCAGTGCCGGTCAGCTCGAAAATCAACGTTTGCTCGACCA
GATCCGCGCGTTGCATGAGGACAGTCGGGGCACACTTGGCGCAGGCCGGATGCAGGAAGATCTGGCCGATGCCGGCCATAGCCTGAGTCTGAACCGGGTG
GCGCGCCTGATGGCAGCTGACGGCTTGCAGGGCTGGCCACGACCGAAGCGCCGAGGCCAGCAAGGCAGGCCTGCGTTGACTCTGCCAGGCGTGCGTAACC
GGCTGGAGCGGGACTTCAGCGCATTGGAGCCGGAGACCAAGTGGGTCACGGATATCACCGAGATCAAAACCCAGCAGAGCAAGCTGTATCTGTGCATCGT
TCTGGATCTGTTTGATCAGCGAGTGGTGGGCTGGTCGATGCAACACCGCCAGGACCGTCAGATGGTGATTCGTGCGGTGCAGATGGCAGTCTGGCAGCGT
CAAGAAAGTTACGAGGTGATCCTGCATTCGGATCGTGGCACCCAGTTTCGCAGCGGCGACTATCAGCGTTATCTAGCGGCCAACAGCCTGGTCTGCTCGA
TGAGCGCGGTGGGGCACTGCGGGGACAACGCTGCGTGCGAAGGCTTCTTTGGCCTGCTCAAACGCGAGCGGATCTATCGAACGAGCTACCCGACACTGGA
TGCAGCACGAGCGGATGTGTTTGACTACATCGAGCGACGCCACAATCCAAGGATGCGGCGAAGGGTCGCCAGGCAGGATCAGAAGGTTGCAGCTCTTTTA
GAACCGTCCGTGATTTCGGGGTAGAACCCGA
Recoding section
  • Recoding by frameshift
  • Frame
  • Type
  • Experimentally demonstrated

Stimulators :

  • Shine-Dalgarno sequence :
  • Secondary structure :

Recoding motif :

Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
288 bp95 aa68355+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MSKRRKFSAEFKRGAVEQASQSGVSCAQVARELGIRDTLLTRWKREAQGQGSVVFAGAGTPRDEELAQLKRELARVKKERDFLREAATFFAKGSS

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
1020 bp339 aa2051224+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

GAGSGVSRICWCRDAPGRGACAVEARTSPGEEGAGFFARSGDVLCQGIILRYQVIERCRDEFPVRLMCRCLKVSASGYYDWSKRLPSAGQLENQRLLDQI
RALHEDSRGTLGAGRMQEDLADAGHSLSLNRVARLMAADGLQGWPRPKRRGQQGRPALTLPGVRNRLERDFSALEPETKWVTDITEIKTQQSKLYLCIVL
DLFDQRVVGWSMQHRQDRQMVIRAVQMAVWQRQESYEVILHSDRGTQFRSGDYQRYLAANSLVCSMSAVGHCGDNAACEGFFGLLKRERIYRTSYPTLDA
ARADVFDYIERRHNPRMRRRVARQDQKVAALLEPSVISG

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1157 bp385 aa681224+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MSKRRKFSAEFKRGAVEQASQSGVSCAQVARELGIRDTLLTRWKREAQGQGSVVFAGAGTPRDEELAQLKRELARVKKERDFFARSGDVLCQGIILRYQV
IERCRDEFPVRLMCRCLKVSASGYYDWSKRLPSAGQLENQRLLDQIRALHEDSRGTLGAGRMQEDLADAGHSLSLNRVARLMAADGLQGWPRPKRRGQQG
RPALTLPGVRNRLERDFSALEPETKWVTDITEIKTQQSKLYLCIVLDLFDQRVVGWSMQHRQDRQMVIRAVQMAVWQRQESYEVILHSDRGTQFRSGDYQ
RYLAANSLVCSMSAVGHCGDNAACEGFFGLLKRERIYRTSYPTLDAARADVFDYIERRHNPRMRRRVARQDQKVAALLEPSVISG

 

Blast result :
Comments
ISStma14 is 92% aa similar to ISStma5. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] ISfinder annotation (2009)
2] Crossman,L.C., Gould,V.C., Dow,J.M., Vernikos,G.S., Okazaki,A., Sebaihia,M., Saunders,D., Arrowsmith,C., Carver,T., Peters,N., Adlem,E., Kerhornou,A., Lord,A., Murphy,L., Seeger,K., Squares,R., Rutter,S., Quail,M.A., Rajandream,M.A., Harris,D., Churcher,C., Bentley,S.D., Parkhill,J., Thomson,N.R. and Avison,M.B. (2008) Genome Biol. 9 (4), R74