ISMex19

  • Family IS5
  • Group IS427
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
ND Methylobacterium extorquens
Methylobacterium extorquens AM1
DNA section
IS Length : 849 bp

Ends


IR Length : 16/19

IRL : GAGCGTGGGACAAAACCGCGGCTGAGGGGGTTGGGAGAGGATGGACGCTC
IRR : GAGTTAGGGACAAAACCGCTTTGCCTGAGCTTGGCAGATGAGTGCGCATG

Insertion site


Left flankDirect repeatRight flankDR Length
TCACCGAGTAAGCCCGCTT3

DNA sequence

GAGCGTGGGACAAAACCGCGGCTGAGGGGGTTGGGAGAGGATGGACGCTCTCGTACCCGACGATCTCTGGGCGGTGGTCGAGCCGCTTCTGCCGCCTGAG
CCCGAGAAGCCGAAAGGCGGTCGCCCTCGTGCCTCTGACCGGGCGGCGCTGGCCGGCATCATCTTGGTGCTGCGGTCCGGCATGCAGTGGAAGCACCTGC
CGCGTTCAGAGGTGGGCTGCAGCGGCAAGACGAGTTGGAGGCGGCTGGGCACATGGCAGGCGGCCGGCGTCTGGGCCGCGTTGCACCGGGTGATGCTGGA
GCAACTTCAGGACGCCGATGCGCTCGACTGGTCGCGGGCGGCTCTCGACAGCGCCAGTCTGCCGGCCAAAAAAGGGGCTGGTCAACGGGCCCGAACCCGA
CGGATCGGGGTAAGCCGGGCACGAAGCGCCACCTCGTCGTGGACGCCAGGGGCACGCCGCTCGGCCTGACGCTGAGCGGGGCCAACTGCAACGACAGCCG
TATGCTGGCCGCCACGCTCGATGCGGTACCGGGCGTGCGCACGGGTCGGCGCGGCCGCCCGCGGCGCAGACCCGACAAGCTGCACGCCGATAAGGGATAC
GACCATCGCCGTTGTCGGTGCGAGTGCCGGGCTCGCAGCATCACACCGCGTATTGCCCGGCGTGGCATCGAGAGCAGCGAACGGCTGGGTCGCTATCGCT
GGATCGTGGAACGGACACTGGCTTGGCTCGCCCGCTTCCGCCGTCTCACCATCCGCTACGAACGTCGCGCCGACCTGCACCTCGCCCTCACCACCCTCGC
ATGCGCACTCATCTGCCAAGCTCAGGCAAAGCGGTTTTGTCCCTAACTC
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
417 bp142 aa53469+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MDALVPDDLWAVVEPLLPPEPEKPKGGRPRASDRAALAGIILVLRSGMQWKHLPRSEVGCSGKTSWRRLGTWQAAGVWAALHRVMLEQLQDADALDWSRA
ALDSASLPAKKGAGQRARTRRIGVSRARSATSSWTPGARRSA

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
708 bp235 aa139846+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

PGGAGRHHLGAAVRHAVEAPAAFRGGLQRQDELEAAGHMAGGRRLGRVAPGDAGATSGRRCARLVAGGSRQRQSAGQKRGWSTGPNPTDRGKPGTKRHLV
VDARGTPLGLTLSGANCNDSRMLAATLDAVPGVRTGRRGRPRRRPDKLHADKGYDHRRCRCECRARSITPRIARRGIESSERLGRYRWIVERTLAWLARF
RRLTIRYERRADLHLALTTLACALICQAQAKRFCP

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
794 bp268 aa53846+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MDALVPDDLWAVVEPLLPPEPEKPKGGRPRASDRAALAGIILVLRSGMQWKHLPRSEVGCSGKTSWRRLGTWQAAGVWAALHRVMLEQLQDADALDWSRA
ALDSASLPAKKRGWSTGPNPTDRGKPGTKRHLVVDARGTPLGLTLSGANCNDSRMLAATLDAVPGVRTGRRGRPRRRPDKLHADKGYDHRRCRCECRARS
ITPRIARRGIESSERLGRYRWIVERTLAWLARFRRLTIRYERRADLHLALTTLACALICQAQAKRFCP

 

Blast result :
Comments
ISMex19 is 70% aa similar to IS1421.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Stephane Vuilleumier et.al. Methylobacterium genome sequences: a reference blueprint to investigate microbial metabolism of C1 compounds from natural and industrial sources. (2009) PLoS ONE Submitted.