ISPna1

  • Family IS630
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_008758 ND Polaromonas naphthalenivorans
Polaromonas naphthalenivorans CJ2 plasmid pPNAP02
DNA section
IS Length : 1179 bp

Ends


IR Length : 14

IRL : GTGTCGCGTCATGAGGTAATTGACGTAGACAATGGGGGATGGAGCATTAC
IRR : GTGTCGCGTCATGAAAAATTTGTCGGGTAAAGCCGTTTGAGTTTGACGCG

Insertion site


Left flankDirect repeatRight flankDR Length
CCGCTGGCTCTAGGAGTCTGAG2

DNA sequence

GTGTCGCGTCATGAGGTAATTGACGTAGACAATGGGGGATGGAGCATTACAAAGTCACCTTGTCAGAACAAGAAAGAGTCGAGCTGCAGGACATCGCGGG
CAAAGGCACGCACGCCGCGTCCAAGGTCATCAATGCCTTGATACTGCTTAACTGCGACCAAGCCGGTAGCCGCACCGAACGCCCCCGCACCTGCGACATC
GCAGCCATGCTGTGCGTGAGTGAGCGCAAGGTGGACAGGATCAAGAAGAAGTTTGTCCTGGAAGGCTTGGCGCTGACGCTGAACCGCCAGCCCTCCAAGT
GCGAGTACGACCTGTTGATCGATGGCCGCCTGGAAGCGCAGCTGTTGGCGCTGAGTTGCTCGGCGCCTCCCGAAGGCCAGGCCCGCTGGTCGCTGCGGCT
GCTGGCCGACCGGCTGGTCGAGCTCGAATTGATTGATAGCGTCTCGCACGAGACGGTGCGCCGCACGCTCAAAAAAACGAACTCAAGCCCTGGAGGAAAG
TCGGCTGGGTGATCGCGCCCCAGGCCAACGCTCAATTCGTGGCCGCCATGGAAAAGGTGCTGGACATCTACAGCCGGCCTTACGATGCGAAGCACCCCGT
GGTGTGCATGGACGAGACGCCTCGCCAACTCATTCGCGAGACGCGCGAGCCCATTGCAGTGGCGCCCGGCCGGCCCGAGCGCCATGACTACGAGTACGAA
CGCTGCGGCGTGTGCAACGTGTTCATGGCCAGCGAGCCGCTGGCCGGTCTGCGCCTGACCAAGGTCACCGAGCGGCGGACCAAACTGGACTGGGCGGTGT
TCGTGCAAGACATCGCTGAAAGCTACCTTGACGCCGAGCGCATCACGTTGGTGATGGACAACCTGAATACGCACACGCCGGCCTCGCTGTACGAGGCGTT
TACCCCGGAGAAAGCCAAGGCGCTGTGGGACCGCTTCGAGTTTGTCTACACCCCGAAGCACGGCAGCTGGCTGAACATGGCAGAAATTGAGATCAATGTC
ATGGTGAGCCAGTGTCTGGATCGGCGCATCGACAACATCGAGACCGTGCGAAGCGAAGTCGCTGCCTGGCAAGCCCTCCGCGACAACCGTCAGGCCAAAG
TCAACTGGCAATTCACCACCAAGGATGCCCGCGTCAAACTCAAACGGCTTTACCCGACAAATTTTTCATGACGCGACAC
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
474 bp157 aa39512+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MEHYKVTLSEQERVELQDIAGKGTHAASKVINALILLNCDQAGSRTERPRTCDIAAMLCVSERKVDRIKKKFVLEGLALTLNRQPSKCEYDLLIDGRLEA
QLLALSCSAPPEGQARWSLRLLADRLVELELIDSVSHETVRRTLKKTNSSPGGKSAG

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
732 bp243 aa4401171+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

RLARDGAPHAQKNELKPWRKVGWVIAPQANAQFVAAMEKVLDIYSRPYDAKHPVVCMDETPRQLIRETREPIAVAPGRPERHDYEYERCGVCNVFMASEP
LAGLRLTKVTERRTKLDWAVFVQDIAESYLDAERITLVMDNLNTHTPASLYEAFTPEKAKALWDRFEFVYTPKHGSWLNMAEIEINVMVSQCLDRRIDNI
ETVRSEVAAWQALRDNRQAKVNWQFTTKDARVKLKRLYPTNFS

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1133 bp377 aa391171+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MEHYKVTLSEQERVELQDIAGKGTHAASKVINALILLNCDQAGSRTERPRTCDIAAMLCVSERKVDRIKKKFVLEGLALTLNRQPSKCEYDLLIDGRLEA
QLLALSCSAPPEGQARWSLRLLADRLVELELIDSVSHETVRRTLKKNELKPWRKVGWVIAPQANAQFVAAMEKVLDIYSRPYDAKHPVVCMDETPRQLIR
ETREPIAVAPGRPERHDYEYERCGVCNVFMASEPLAGLRLTKVTERRTKLDWAVFVQDIAESYLDAERITLVMDNLNTHTPASLYEAFTPEKAKALWDRF
EFVYTPKHGSWLNMAEIEINVMVSQCLDRRIDNIETVRSEVAAWQALRDNRQAKVNWQFTTKDARVKLKRLYPTNFS

 

Blast result :
Comments
ISPna1 is 80% aa similar to ISCARN102. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] ISfinder annotation (2010)
2] Yagi,J.M., Sims,D., Brettin,T., Bruce,D. and Madsen,E.L.(2009) Environ. Microbiol. 11 (9), 2253-2270