ISHsp2

  • Family IS630
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
JX569340 Y Halomonas sp.
Halomonas sp. ZM3
DNA section
IS Length : 1078 bp

Ends


IR Length : 16/26

IRL : GTGCCTGATCTTAAGTTTTCGTGTAACGTTGGAGTCTGATATCTCTAACG
IRR : GTGCTTATTCAAAATTAATCGCGTGATCAGCTTCATAGCTACCCAATAGC

Insertion site


Left flankDirect repeatRight flankDR Length
TTCTAATTCTTTAACTGGCCCATA4

DNA sequence

GTGCCTGATCTTAAGTTTTCGTGTAACGTTGGAGTCTGATATCTCTAACGGATGGAACCATGTTAAGGCGTTTCGTTGCTCCCCTTACTGACTCTGAACA
GCAGACGCTGTCCTCCGCCTATCACCACGGTGAGAAGCGTGCTCTACGACGCCGTGCACATGCCATCCTACTGAGCAATCAAGGCCATACGATCAACCAA
ATTAGCCAGATACTGGAGGTCCGCCGCGACGCCGTATCACGATGGCTCAAACAATGGGAAGCGTCAGGCCTCGATGGATTGATCGACAAGCCCCGCAGTG
GTCGCACGCCCGTCTTGGACGAGAGCGATCATCAGCGACTGCAGGAGCTCGTCGCCGAACAGCCTCACCAGATTCGATCCTTGCAGGCCCGTTTTGAAGA
AGAGACGGGCAAGACCGTCAGCACGGTGACCCTTCGCCGAGCGTTGAAAAAAAAATGACTTCAGCTTCAAACGTATCCGGCACTCACTCAAAGCATTGCG
TGACGAGACGGATTTCCGAAACACCCAAGGCCTCCTCAAGGCACTCCATCAGCAGGAGGACCAGGGTGAGCACGAGCTCTATTACTTTGATGAATCGGGT
TTTTCACAATCGTCGTCGGTACCCTATGCGTGGAGTCCCATCGGGCAACCCTGCGAGGTGACCGCCTACTCACACAGCCGAAGGCTGAACGTATTGGGGT
TCCTCAGCCGTGCTGGGAAACTGATCTACCACACCACTACCGGGTCAGTGACCACCGAGACGGTCATCGAAGCGTTTGACCAGTTTGTAGCACAGAAAAA
AACCGATACCTTCGCTGTTGTGGTGCTCGACAACGCCAGCATGCATCGCTCGCAGGCCTTCAGGCGGAAAATAGTCGAGTGGATGTCGCACCGTGTGCAT
CTGGTTTACTTATCGGCCTACTCGCCGGAGCTGAATCTGATTGAGATACTGTGGCGTCAGATGAAGTACGCATGGCTGCCGTTGAGTGCTTACCTTTCGT
TTGATCACCTCTGTGAAGAGGTACACCGGCTATTGGGTAGCTATGAAGCTGATCACGCGATTAATTTTGAATAAGCAC
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
399 bp132 aa60458+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MLRRFVAPLTDSEQQTLSSAYHHGEKRALRRRAHAILLSNQGHTINQISQILEVRRDAVSRWLKQWEASGLDGLIDKPRSGRTPVLDESDHQRLQELVAE
QPHQIRSLQARFEEETGKTVSTVTLRRALKKK

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
627 bp192 aa4481074+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

KKNDFSFKRIRHSLKALRDETDFRNTQGLLKALHQQEDQGEHELYYFDESGFSQSSSVPYAWSPIGQPCEVTAYSHSRRLNVLGFLSRAGKLIYHTTTGS
VTTETVIEAFDQFVAQKKTDTFAVVVLDNASMHRSQAFRRKIVEWMSHRVHLVYLSAYSPELNLIEILWRQMKYAWLPLSAYLSFDHLCEEVHRLLGSYE
ADHAINFE

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1015 bp337 aa601074+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MLRRFVAPLTDSEQQTLSSAYHHGEKRALRRRAHAILLSNQGHTINQISQILEVRRDAVSRWLKQWEASGLDGLIDKPRSGRTPVLDESDHQRLQELVAE
QPHQIRSLQARFEEETGKTVSTVTLRRALKKNDFSFKRIRHSLKALRDETDFRNTQGLLKALHQQEDQGEHELYYFDESGFSQSSSVPYAWSPIGQPCEV
TAYSHSRRLNVLGFLSRAGKLIYHTTTGSVTTETVIEAFDQFVAQKKTDTFAVVVLDNASMHRSQAFRRKIVEWMSHRVHLVYLSAYSPELNLIEILWRQ
MKYAWLPLSAYLSFDHLCEEVHRLLGSYEADHAINFE

 

Blast result :
Comments
ISHsp2 has been identified by its integration to the entrapment vector pMAT1 (sacB cassette).
ISHsp2 is 67% aa similar to ISVsa8.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
References
1] Dziewit, L., Pyzik, A., Matlakowska, R., Baj, J., Szuplewska, M., Bartosik, D. (2013) BMC Microbiol. 13, 59
2] Dziewit,L. and Bartosik,D. (2012) Direct submission GenBank.