ISMdi16

  • Family IS3
  • Group IS407
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
ND Methylobacterium dichloromethanicum
Methylobacterium dichloromethanicum DM4
DNA section
IS Length : 1271 bp

Ends


IR Length : 18/25

IRL : TGGCCTGCCCCCTGAAAAGTGGTCCTCCCTGAGGTATGGCTTTGAGCCAT
IRR : TGGCCTGCCCCCATTCGGTGGCCCAGGTGTGAAGTTAGTGCATTGTCGGT

Insertion site


Left flankDirect repeatRight flankDR Length
CAGGCGGATTCGGTTATGAG0

DNA sequence

TGGCCTGCCCCCTGAAAAGTGGTCCTCCCTGAGGTATGGCTTTGAGCCATGTGGAGGATGTCATCATGGGACGGAAGAAGCATACGGCTGAAGAGATTGT
TGCCAAGCTGCGCCAAGTGGATGTTCTGGTCTCGCAGGGTCGCAAGGTGTCTGAAGCAATCCGATCCATCGAGGTGACCGAGGTCACGTATTACCGCTGG
CGATCCGAGTACGGCGGTCTGAAGGGTGATCAGGTGAAGCGGCTGAAGTCCTTGGAGATGGAGAACTTGCGCCTGCGTCGGGCGATCTCTGATCTGACGC
TGGAGAAATTGATCCTGAAGGAGGCCGCTTCGGGAAACTTCTGAGCCCGGCTCGCCGCCGGGCTTGCGTCAATCACGTCGTAGCTGAGCACGGTGTGTCG
GAACGCTTCGCCTGCCGCGTCCTGGGCCAGCATCGTTCGACCCAGCGCAAATGCGTCGTGGTGATCGAGGACGAGGCCGCATTGACCGCCGCCATCGTCG
CGCTGGCCCTTCAGTACGGGCGCTACGGCTACCGCCGGATCACGGCGATGCTCCGGCAAGATGGCTGGAGGGTCAACGTGAAGCGGGTCGAGCGCATCTG
GCGGCGTGAAGGGCTCAAGGTCCCGGCCCGGCAACCGAAGCGGGCTCGCCTCTGGCTCAACGACGGCTCCTGTGTGCGCTTGCGGCCGGAGCGGCCCGGC
CACGTCTGGTCCTACGACTTCGTCGAGCACCGCACACACAACGGGCGCAGGTACCGGATGCTGAACGTCATCGATGAGTTCACGCGCGAGTGCTTGGCCA
TCCGCGTATCTCGTAAGCTGAAGGCGCACGACGTGATCGACGTACTCTCGGATCTATTCAGTCTGCGCGGTGTGCCGGGCCATATCCGCTCGGACAATGG
CCCGGAGTTCATCGCGAAAGCTGTCCGAGACTGGATCGCGGCGGTCGGCTCACAGACTGCTTACATCGAGCCCGGCAGTCCCTGGGAGAACGGCTATTGC
GAGAGCTTCAACGCAAAGCTGCGGGACGAACTCCTGAACGGCGAGGTGTTCTACACCCTCAAGGAGGCTGGCGTCGTGATCGAGCAGTGGCGGACGCACT
ACAACAGCACCCGTCCGCACTCCGCGTTGGGCTACCAGCCGCCTGCGCCAGAGATCCTCATCTGGCCAGGAGAGCCAAGCGGTTCAGCCCCGTCCTCCGC
TCGCCCCGCCATCGTCATGCGACCGACAATGCACTAACTTCACACCTGGGCCACCGAATGGGGGCAGGCCA
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
279 bp92 aa66344+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MGRKKHTAEEIVAKLRQVDVLVSQGRKVSEAIRSIEVTEVTYYRWRSEYGGLKGDQVKRLKSLEMENLRLRRAISDLTLEKLILKEAASGNF

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
945 bp314 aa2931237+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

SDAGEIDPEGGRFGKLLSPARRRACVNHVVAEHGVSERFACRVLGQHRSTQRKCVVVIEDEAALTAAIVALALQYGRYGYRRITAMLRQDGWRVNVKRVE
RIWRREGLKVPARQPKRARLWLNDGSCVRLRPERPGHVWSYDFVEHRTHNGRRYRMLNVIDEFTRECLAIRVSRKLKAHDVIDVLSDLFSLRGVPGHIRS
DNGPEFIAKAVRDWIAAVGSQTAYIEPGSPWENGYCESFNAKLRDELLNGEVFYTLKEAGVVIEQWRTHYNSTRPHSALGYQPPAPEILIWPGEPSGSAP
SSARPAIVMRPTMH

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1172 bp390 aa661237+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MGRKKHTAEEIVAKLRQVDVLVSQGRKVSEAIRSIEVTEVTYYRWRSEYGGLKGDQVKRLKSLEMENLRLRRAISDLTLEKLILKEAASGKLLSPARRRA
CVNHVVAEHGVSERFACRVLGQHRSTQRKCVVVIEDEAALTAAIVALALQYGRYGYRRITAMLRQDGWRVNVKRVERIWRREGLKVPARQPKRARLWLND
GSCVRLRPERPGHVWSYDFVEHRTHNGRRYRMLNVIDEFTRECLAIRVSRKLKAHDVIDVLSDLFSLRGVPGHIRSDNGPEFIAKAVRDWIAAVGSQTAY
IEPGSPWENGYCESFNAKLRDELLNGEVFYTLKEAGVVIEQWRTHYNSTRPHSALGYQPPAPEILIWPGEPSGSAPSSARPAIVMRPTMH

 

Blast result :
Comments
ISMdi16 is 83% aa similar to ISMex5.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References