ISRso20

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NZ_AAKL01000002.1 ND Ralstonia solanacearum
Ralstonia solanacearum UW551
DNA section
IS Length : 1287 bp

Ends


IR Length : 27/36

IRL : TGACCTTGCCCCTGCGAAACGAATCCCTTGCTGAGCCGATAAACTCAAGC
IRR : TGACCTTGCCCCTGTTCGACGAATCCCATAGCCGAGGAAGTCAGGCCGCT

Insertion site


Left flankDirect repeatRight flankDR Length
CTTTTAACTCATACCGCCGA0

DNA sequence

TGACCTTGCCCCTGCGAAACGAATCCCTTGCTGAGCCGATAAACTCAAGCAAGGAGAGAAGCAATGACAAGCAAGGCAAAGCGGGCGCGGTACACGCTCG
AATTCAAGCTGGAGGCGGTACGGCTGGTTAAGGCCGGGCAAAGCATGGCAGCGGTGGGTGCCACGCTAGGCGTGGCGAACCAGACAATCTACAACTGGGT
AAAAGCCGACCGGGAGGGTCGGCTGAGCGGGGCAGATAGCAAGCCGGTGAGTCCGGAACAAATGGAACTGGCGCGGTTGCGGGCAGAAGTGGCGCGCCTG
AAGATGGAGCGCGACATTCTAAAAAAGGCAGCGGCGTACTTCGCGAAGGAATCGACGTGAAGTACGCCTTCATCGAGAGAAGTCGCCACCGCTGGCCAGT
CTCGATGCTGTGCGAAGTGCTGGAGGTCAGCCCGAGCGGCTATCACCAGCGCAAGCAGCAGACGGTGCCCGACAGGCCGCATAGAGGTCGCATCACCGAC
GACGCCCTGCTGACGCACATCTTAGCCATTCACGCTCAGGTCAAAGGTGAATATGGCTGGCCGCGCATGTGGAAAGAACTGGTTGCTCGCGGTGTGCGCG
TAGGCAAGGAGCGGGTTCGCAAGCAGATGGCACAACACGGCATCCGAGCCCGGCACAAGCGCAAATACATCGCGACCACCAACTCAAATCACGGCCTGCC
GGTTGCGCCGAATCTGCTGGAGCGCAACTTCACCGTCACAATGCCGAATCAGGTTTGGACGACCGACATCACCTATGTTCCGACGGCCGAAGGCTGGCTG
TATCTGAGCGTCATCATCGACCTGTTCAGCCGACAGGTGGTGGGCTGGTCGATGCAGCCGCACATGAAAGCCGAACTGGTGACAGATGCACTGCGCATGG
CGTGGTTCCGGCGTCGCCCGGCAGCAGGCGTCATCGTGCATAGCGACCGTGGCAGCCAGTATTGCAGTGGTCTGTTCCAGGGCGCGCTGCGAGCCTACGG
CATGCGCTCGTCAATGAGCCGACGCGGTGATTGCTGGGATAATGCGCCGACCGAAAGCCTGTGGGGTTCGCTCAAGGTGGGGCGCTTGCATGGCCGGCAG
TTCGCAACCCGGCGCGCCGCCATGGATGAAGTGGTTGATTGGCTCGGCTTCTACAATGCCCGCCGCTTGCACTCGACACTCAACTACGTCAGCCCCATGA
CGTTCGAGAAAAACTGGGCCGCCGCTCAACACGGCAAAGCGGCCTGACTTCCTCGGCTATGGGATTCGTCGAACAGGGGCAAGGTCA
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
301 bp98 aa60360+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MTSKAKRARYTLEFKLEAVRLVKAGQSMAAVGATLGVANQTIYNWVKADREGRLSGADSKPVSPEQMELARLRAEVARLKMERDILKKAAAYFAKEST

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
1008 bp335 aa2401247+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

QAGESGTNGTGAVAGRSGAPEDGARHSKKGSGVLREGIDVKYAFIERSRHRWPVSMLCEVLEVSPSGYHQRKQQTVPDRPHRGRITDDALLTHILAIHAQ
VKGEYGWPRMWKELVARGVRVGKERVRKQMAQHGIRARHKRKYIATTNSNHGLPVAPNLLERNFTVTMPNQVWTTDITYVPTAEGWLYLSVIIDLFSRQV
VGWSMQPHMKAELVTDALRMAWFRRRPAAGVIVHSDRGSQYCSGLFQGALRAYGMRSSMSRRGDCWDNAPTESLWGSLKVGRLHGRQFATRRAAMDEVVD
WLGFYNARRLHSTLNYVSPMTFEKNWAAAQHGKAA

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1188 bp394 aa601247+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MTSKAKRARYTLEFKLEAVRLVKAGQSMAAVGATLGVANQTIYNWVKADREGRLSGADSKPVSPEQMELARLRAEVARLKMERDILKKGSGVLREGIDVK
YAFIERSRHRWPVSMLCEVLEVSPSGYHQRKQQTVPDRPHRGRITDDALLTHILAIHAQVKGEYGWPRMWKELVARGVRVGKERVRKQMAQHGIRARHKR
KYIATTNSNHGLPVAPNLLERNFTVTMPNQVWTTDITYVPTAEGWLYLSVIIDLFSRQVVGWSMQPHMKAELVTDALRMAWFRRRPAAGVIVHSDRGSQY
CSGLFQGALRAYGMRSSMSRRGDCWDNAPTESLWGSLKVGRLHGRQFATRRAAMDEVVDWLGFYNARRLHSTLNYVSPMTFEKNWAAAQHGKAA

 

Blast result :
Comments
Genome in progress.
ISRso20 is 85 % (ORFA) aa similar to ISPsy28 and 80% (ORFB) aa similar to ISRasp1. The third ORF is a putative ORFAB transposase reconstructed in sillico by possible -1 frameshift.
References
1] Gabriel,D.W., Allen,C., Schell,M., Denny,T.P., Greenberg,J.T., Duan,Y.P., Flores-Cruz,Z., Huang,Q., Clifford,J.M., Presting,G., Gonzales,E.T., Reddy,J., Elphinstone,J., Swanson,J., Yao,J., Mulholland,V., Liu,L., Farmerie,W., Patnaikuni,M., Balogh,B., Norman,D., Alvarez,A., Castillo,J.A., Jones,J., Saddler,G., Walunas,T., Zhukov,A. and Mikhailova,N. (2006) Mol. Plant Microbe Interact. 19 (1), 69-79