ISPko5

  • Family IS5
  • Group IS427
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
ND Paracoccus kondratievae
Paracoccus kondratievae NCIBM 13773
DNA section
IS Length : 851 bp

Ends


IR Length : 15

IRL : GGTTGTGTTGACAAAAAGGATTCCCCTGCGCGTCTGGCTGTGATTCAAGA
IRR : GGTCATGTTTACAAATGGCGAAGCCAGAGCCTGATGCAGGCGATGTCGAT

Insertion site


Left flankDirect repeatRight flankDR Length
GCACGCCGGCTAGATCGACGGC2
AAGATCAGATTAGTATTGAGAG2
GCACGCCGGCTAGATCGACGGC2
GCTTACTTGCTACGGCTCAATA2
CGGTGTCGCCTAGGCCCGCCAG2

DNA sequence

GGTTGTGTTGACAAAAAGGATTCCCCTGCGCGTCTGGCTGTGATTCAAGATCATCTCTACGTGGGAGGTGACCTTGGCACGCAATCTGATGTCCGACGAC
GAATGGGCATTCTTTGAGGGCTTCATCCGAGCCGTCCGGCATCCGAACGGGCGCAAGCCTGCGGACCATCGACTTGTTCTGGATGGCATTTTCTGGGTCG
CGCGGACCGGTGCGCCCTGGCGGGACCTGCCAGAGGAGTTTGGCAAGTGGTCATCTGTCTACCGGCAGTTCCGGCGCTGGACGCTCGCCGGGCTGTGGGA
GGACATCCTGGATGCCTTGAACCACGCGAAGCTCGCGCCCGACAAGCTCCAGATGATCGACAGCACTGTGATCAGGGCCCACCACCATGCGGCCGGCGCA
AAAGGGGGACTCCGAAAGAGGCTCCTGGCCATTCGAGAGGTGGGTTCTCGACCAAGATCCATCTCCGCGTCAACGGCGCTGGCCTCCCGATAAGGACCGA
GATCACGCCCGGGCAGGATTCAGACTACACGGGCTATGATCTGGTGATGGCCGACAACCTTCCGCAGCCCGCCGTGTTGGTCGCCGACAGGGGCTATGAC
TCTGATAAAATTAGAGAAGACATCGAGAGCCGTAACGCGCTGCCCATGATCCCCATGCGAAAGAACCGCAAGGTGCGCAAGGTCGTCGACATGACCATCT
ACACCTTGCGCAACATGGTCGAGCGTTGTTTCAACAAGCTCAAGAACAGTCGCCGCCTGGCAACACGCTACGACAAAACCGCAGACAGTTTCCTCGGCTT
CATCGACATCGCCTGCATCAGGCTCTGGCTTCGCCATTTGTAAACATGACC
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
426 bp141 aa68493+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

VTLARNLMSDDEWAFFEGFIRAVRHPNGRKPADHRLVLDGIFWVARTGAPWRDLPEEFGKWSSVYRQFRRWTLAGLWEDILDALNHAKLAPDKLQMIDST
VIRAHHHAAGAKGGLRKRLLAIREVGSRPRSISASTALASR

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
549 bp182 aa295843+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

VGGHPGCLEPREARARQAPDDRQHCDQGPPPCGRRKRGTPKEAPGHSRGGFSTKIHLRVNGAGLPIRTEITPGQDSDYTGYDLVMADNLPQPAVLVADRG
YDSDKIREDIESRNALPMIPMRKNRKVRKVVDMTIYTLRNMVERCFNKLKNSRRLATRYDKTADSFLGFIDIACIRLWLRHL

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
776 bp258 aa68843+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

VTLARNLMSDDEWAFFEGFIRAVRHPNGRKPADHRLVLDGIFWVARTGAPWRDLPEEFGKWSSVYRQFRRWTLAGLWEDILDALNHAKLAPDKLQMIDST
VIRAHHHAAGAKRGTPKEAPGHSRGGFSTKIHLRVNGAGLPIRTEITPGQDSDYTGYDLVMADNLPQPAVLVADRGYDSDKIREDIESRNALPMIPMRKN
RKVRKVVDMTIYTLRNMVERCFNKLKNSRRLATRYDKTADSFLGFIDIACIRLWLRHL

 

Blast result :
Comments
ISPko5 is 97% aa similar to ISPpa6.

ISPko5 was identified by in silico nucleotide sequence analysis of Paracoccus kondratievae plasmid pKON1 (95 kb). This IS is present in 5 copies in the pKON1 genome (2 copies of ISPko5 and 3 isoforms: ISPko5a, ISPko5b and ISPko5c, one copy each).
References
1] Czarnecki J. (2015) Direct submission