ISRso20
- Family IS3
- Group IS3
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
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 flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CTTTTAACTC | ATACCGCCGA | 0 |
DNA sequence
TGACCTTGCCCCTGCGAAACGAATCCCTTGCTGAGCCGATAAACTCAAGCAAGGAGAGAAGCAATGACAAGCAAGGCAAAGCGGGCGCGGTACACGCTCG
AATTCAAGCTGGAGGCGGTACGGCTGGTTAAGGCCGGGCAAAGCATGGCAGCGGTGGGTGCCACGCTAGGCGTGGCGAACCAGACAATCTACAACTGGGT
AAAAGCCGACCGGGAGGGTCGGCTGAGCGGGGCAGATAGCAAGCCGGTGAGTCCGGAACAAATGGAACTGGCGCGGTTGCGGGCAGAAGTGGCGCGCCTG
AAGATGGAGCGCGACATTCTAAAAAAGGCAGCGGCGTACTTCGCGAAGGAATCGACGTGAAGTACGCCTTCATCGAGAGAAGTCGCCACCGCTGGCCAGT
CTCGATGCTGTGCGAAGTGCTGGAGGTCAGCCCGAGCGGCTATCACCAGCGCAAGCAGCAGACGGTGCCCGACAGGCCGCATAGAGGTCGCATCACCGAC
GACGCCCTGCTGACGCACATCTTAGCCATTCACGCTCAGGTCAAAGGTGAATATGGCTGGCCGCGCATGTGGAAAGAACTGGTTGCTCGCGGTGTGCGCG
TAGGCAAGGAGCGGGTTCGCAAGCAGATGGCACAACACGGCATCCGAGCCCGGCACAAGCGCAAATACATCGCGACCACCAACTCAAATCACGGCCTGCC
GGTTGCGCCGAATCTGCTGGAGCGCAACTTCACCGTCACAATGCCGAATCAGGTTTGGACGACCGACATCACCTATGTTCCGACGGCCGAAGGCTGGCTG
TATCTGAGCGTCATCATCGACCTGTTCAGCCGACAGGTGGTGGGCTGGTCGATGCAGCCGCACATGAAAGCCGAACTGGTGACAGATGCACTGCGCATGG
CGTGGTTCCGGCGTCGCCCGGCAGCAGGCGTCATCGTGCATAGCGACCGTGGCAGCCAGTATTGCAGTGGTCTGTTCCAGGGCGCGCTGCGAGCCTACGG
CATGCGCTCGTCAATGAGCCGACGCGGTGATTGCTGGGATAATGCGCCGACCGAAAGCCTGTGGGGTTCGCTCAAGGTGGGGCGCTTGCATGGCCGGCAG
TTCGCAACCCGGCGCGCCGCCATGGATGAAGTGGTTGATTGGCTCGGCTTCTACAATGCCCGCCGCTTGCACTCGACACTCAACTACGTCAGCCCCATGA
CGTTCGAGAAAAACTGGGCCGCCGCTCAACACGGCAAAGCGGCCTGACTTCCTCGGCTATGGGATTCGTCGAACAGGGGCAAGGTCA
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
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
301 bp | 98 aa | 60 | 360 | + | No |
Description : First part of the transposase
ORF sequence :
MTSKAKRARYTLEFKLEAVRLVKAGQSMAAVGATLGVANQTIYNWVKADREGRLSGADSKPVSPEQMELARLRAEVARLKMERDILKKAAAYFAKEST
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1008 bp | 335 aa | 240 | 1247 | + | No |
Description : Second part of the transposase
ORF sequence :
QAGESGTNGTGAVAGRSGAPEDGARHSKKGSGVLREGIDVKYAFIERSRHRWPVSMLCEVLEVSPSGYHQRKQQTVPDRPHRGRITDDALLTHILAIHAQ
VKGEYGWPRMWKELVARGVRVGKERVRKQMAQHGIRARHKRKYIATTNSNHGLPVAPNLLERNFTVTMPNQVWTTDITYVPTAEGWLYLSVIIDLFSRQV
VGWSMQPHMKAELVTDALRMAWFRRRPAAGVIVHSDRGSQYCSGLFQGALRAYGMRSSMSRRGDCWDNAPTESLWGSLKVGRLHGRQFATRRAAMDEVVD
WLGFYNARRLHSTLNYVSPMTFEKNWAAAQHGKAA
VKGEYGWPRMWKELVARGVRVGKERVRKQMAQHGIRARHKRKYIATTNSNHGLPVAPNLLERNFTVTMPNQVWTTDITYVPTAEGWLYLSVIIDLFSRQV
VGWSMQPHMKAELVTDALRMAWFRRRPAAGVIVHSDRGSQYCSGLFQGALRAYGMRSSMSRRGDCWDNAPTESLWGSLKVGRLHGRQFATRRAAMDEVVD
WLGFYNARRLHSTLNYVSPMTFEKNWAAAQHGKAA
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1188 bp | 394 aa | 60 | 1247 | + | Yes |
Chemistry : DDE
ORF sequence :
MTSKAKRARYTLEFKLEAVRLVKAGQSMAAVGATLGVANQTIYNWVKADREGRLSGADSKPVSPEQMELARLRAEVARLKMERDILKKGSGVLREGIDVK
YAFIERSRHRWPVSMLCEVLEVSPSGYHQRKQQTVPDRPHRGRITDDALLTHILAIHAQVKGEYGWPRMWKELVARGVRVGKERVRKQMAQHGIRARHKR
KYIATTNSNHGLPVAPNLLERNFTVTMPNQVWTTDITYVPTAEGWLYLSVIIDLFSRQVVGWSMQPHMKAELVTDALRMAWFRRRPAAGVIVHSDRGSQY
CSGLFQGALRAYGMRSSMSRRGDCWDNAPTESLWGSLKVGRLHGRQFATRRAAMDEVVDWLGFYNARRLHSTLNYVSPMTFEKNWAAAQHGKAA
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.
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