ISPko4
- Family IS3
- Group IS150
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
ND | Paracoccus kondratievae | Paracoccus kondratievae NCIBM 13773 |
DNA section
IS Length : 1524 bp
Ends
IR Length : 21/30
IRL : CTGTCTCCCGTCAGCGCCCATGGCACAGATTTGAGGTTGTGATTTAAGGA
IRR : CTGTCCGTCGTCAGAACATTTGGCTCAGATCGGGGCTTAGATTAGCGGAG
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CCGTCGGTCG | TTTCCTGG | CTTGTGCCCT | 8 |
CGCCGATAGA | GAGCGACCTC | 0 |
DNA sequence
CTGTCTCCCGTCAGCGCCCATGGCACAGATTTGAGGTTGTGATTTAAGGAGGATTTGGGCTTCGTCGTAGTGACGAAGGAACGAAGATGAAGCCCAAATC
CTCCAATACAAAATTGCCGGCCAAGTCCCCTGCTGAGCGGGTGGTCAAGGACATTCGGCGTCAGACCCGTCGGCACTTCTCAGCTGAAGACAAGATCCGG
ATCGTGCTGGAAGGACTTCGCGGTGACGACAGCATCGCCGAGTTGTGCCGCAAAGAGGGCATCGCCCAGAGCCTGTATTACACTTGGTCAAAGGAGTTCA
TGGAAGCGGGCAAGCGCCGGCTCGCCGGCGATACCGCCCGTGCCGCGACCACCGGTGAGGTTCAGGATCTGCGCCGCGAAGCCCGTGCCCTGAAGGAATG
TGTGGCGGACCTGACGCTCGAAAACCGTTTGCTTAAAAAAGCATGATCGCGGATGGGGGCGACGACGAATGAGGTATCCCGCATCCGAGAAGCTCGAGAT
CATCCGGATCGTCGAACAGTCGCACCTGCCCGCCAGGCAGACGCTGGATCACCTCGGCATTGCCCGCCGGACCTTCTACCGCTGGTATGATCGTTACCGG
GAAGGCGGGCCGGAAGCGCTGGAGGATCGCCCTTCGGCGCCGAGCCGGGTGTGGAACCGCATCGGCGAGGATATCCGGGACCAGATCGTCGAGATGGCGT
TGGAGGCGACCGATCTCAGCCCGCGCGAACTGGCCGTGCGATTTACCGATGAACGCCAATACTTTGTGTCCGAAGCCACGGTCTACCGTCTGCTCAAGGC
CCATGACCTGATCACCAGCCCGGCCTATGTCGTGATCAAGGCGGCCGATCAGTTCCACACCAAGACCACACGGCCGAACGAGATGTGGCAGACCGACTTC
ACCTACTTCAAGATCATCGGCTGGGGCTGGATGTATCTGTCGACGGTGCTTGACGACTTCTCGCGCTACATCATCGCCTGGAAGCTATGCTCCAACATGC
GGGCCGAGGATGTGACCGACACGCTGGACCTCGCACTCGCCGCCTCGGGCCGCGACTGCGCCACCGTGCTGCACAAGCCGCGACTGCTATCGGACAACGG
CCCGAGCTACATAGCGGGCGAACTGGCCGAATACATCGAGGCCAAAAAGATGAGCCATATCCGCGGCGCCCCGTGCCATCCCCAGACCCAGGGCAAGATC
GAGCGCTGGCACCAGACCCTGAAGAACCGAATCCTGCTAGAAAATTACTTCCTGCCCGGTGATCTCGAGGCCCAGATCGAGGCCTTCGTCGAGCACTACA
ACCACCAACGCTACCATGAGAGCCTGAACAACGTGACGCCGGCTGACGCCTACTTCGGCAGGGCGCCGGACATCATCAAACAGCGCGAAAGGATCAAACG
AAAGACCATCGAACATCGGCGCTTGCAGCACCGCAAGCTCGCCGCATAACATCAACCCCAAGACGAGGCCCGCTCTCCGCTAATCTAAGCCCCGATCTGA
GCCAAATGTTCTGACGACGGACAG
CTCCAATACAAAATTGCCGGCCAAGTCCCCTGCTGAGCGGGTGGTCAAGGACATTCGGCGTCAGACCCGTCGGCACTTCTCAGCTGAAGACAAGATCCGG
ATCGTGCTGGAAGGACTTCGCGGTGACGACAGCATCGCCGAGTTGTGCCGCAAAGAGGGCATCGCCCAGAGCCTGTATTACACTTGGTCAAAGGAGTTCA
TGGAAGCGGGCAAGCGCCGGCTCGCCGGCGATACCGCCCGTGCCGCGACCACCGGTGAGGTTCAGGATCTGCGCCGCGAAGCCCGTGCCCTGAAGGAATG
TGTGGCGGACCTGACGCTCGAAAACCGTTTGCTTAAAAAAGCATGATCGCGGATGGGGGCGACGACGAATGAGGTATCCCGCATCCGAGAAGCTCGAGAT
CATCCGGATCGTCGAACAGTCGCACCTGCCCGCCAGGCAGACGCTGGATCACCTCGGCATTGCCCGCCGGACCTTCTACCGCTGGTATGATCGTTACCGG
GAAGGCGGGCCGGAAGCGCTGGAGGATCGCCCTTCGGCGCCGAGCCGGGTGTGGAACCGCATCGGCGAGGATATCCGGGACCAGATCGTCGAGATGGCGT
TGGAGGCGACCGATCTCAGCCCGCGCGAACTGGCCGTGCGATTTACCGATGAACGCCAATACTTTGTGTCCGAAGCCACGGTCTACCGTCTGCTCAAGGC
CCATGACCTGATCACCAGCCCGGCCTATGTCGTGATCAAGGCGGCCGATCAGTTCCACACCAAGACCACACGGCCGAACGAGATGTGGCAGACCGACTTC
ACCTACTTCAAGATCATCGGCTGGGGCTGGATGTATCTGTCGACGGTGCTTGACGACTTCTCGCGCTACATCATCGCCTGGAAGCTATGCTCCAACATGC
GGGCCGAGGATGTGACCGACACGCTGGACCTCGCACTCGCCGCCTCGGGCCGCGACTGCGCCACCGTGCTGCACAAGCCGCGACTGCTATCGGACAACGG
CCCGAGCTACATAGCGGGCGAACTGGCCGAATACATCGAGGCCAAAAAGATGAGCCATATCCGCGGCGCCCCGTGCCATCCCCAGACCCAGGGCAAGATC
GAGCGCTGGCACCAGACCCTGAAGAACCGAATCCTGCTAGAAAATTACTTCCTGCCCGGTGATCTCGAGGCCCAGATCGAGGCCTTCGTCGAGCACTACA
ACCACCAACGCTACCATGAGAGCCTGAACAACGTGACGCCGGCTGACGCCTACTTCGGCAGGGCGCCGGACATCATCAAACAGCGCGAAAGGATCAAACG
AAAGACCATCGAACATCGGCGCTTGCAGCACCGCAAGCTCGCCGCATAACATCAACCCCAAGACGAGGCCCGCTCTCCGCTAATCTAAGCCCCGATCTGA
GCCAAATGTTCTGACGACGGACAG
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 | |
---|---|---|---|---|---|
360 bp | 119 aa | 87 | 446 | + | No |
Description : First part of the transposase
ORF sequence :
MKPKSSNTKLPAKSPAERVVKDIRRQTRRHFSAEDKIRIVLEGLRGDDSIAELCRKEGIAQSLYYTWSKEFMEAGKRRLAGDTARAATTGEVQDLRREAR
ALKECVADLTLENRLLKKA
ALKECVADLTLENRLLKKA
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1035 bp | 344 aa | 415 | 1449 | + | No |
Description : Second part of the transposase
ORF sequence :
RSKTVCLKKHDRGWGRRRMRYPASEKLEIIRIVEQSHLPARQTLDHLGIARRTFYRWYDRYREGGPEALEDRPSAPSRVWNRIGEDIRDQIVEMALEATD
LSPRELAVRFTDERQYFVSEATVYRLLKAHDLITSPAYVVIKAADQFHTKTTRPNEMWQTDFTYFKIIGWGWMYLSTVLDDFSRYIIAWKLCSNMRAEDV
TDTLDLALAASGRDCATVLHKPRLLSDNGPSYIAGELAEYIEAKKMSHIRGAPCHPQTQGKIERWHQTLKNRILLENYFLPGDLEAQIEAFVEHYNHQRY
HESLNNVTPADAYFGRAPDIIKQRERIKRKTIEHRRLQHRKLAA
LSPRELAVRFTDERQYFVSEATVYRLLKAHDLITSPAYVVIKAADQFHTKTTRPNEMWQTDFTYFKIIGWGWMYLSTVLDDFSRYIIAWKLCSNMRAEDV
TDTLDLALAASGRDCATVLHKPRLLSDNGPSYIAGELAEYIEAKKMSHIRGAPCHPQTQGKIERWHQTLKNRILLENYFLPGDLEAQIEAFVEHYNHQRY
HESLNNVTPADAYFGRAPDIIKQRERIKRKTIEHRRLQHRKLAA
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1363 bp | 453 aa | 87 | 1449 | + | Yes |
Chemistry : DDE
ORF sequence :
MKPKSSNTKLPAKSPAERVVKDIRRQTRRHFSAEDKIRIVLEGLRGDDSIAELCRKEGIAQSLYYTWSKEFMEAGKRRLAGDTARAATTGEVQDLRREAR
ALKECVADLTLENRLLKKHDRGWGRRRMRYPASEKLEIIRIVEQSHLPARQTLDHLGIARRTFYRWYDRYREGGPEALEDRPSAPSRVWNRIGEDIRDQI
VEMALEATDLSPRELAVRFTDERQYFVSEATVYRLLKAHDLITSPAYVVIKAADQFHTKTTRPNEMWQTDFTYFKIIGWGWMYLSTVLDDFSRYIIAWKL
CSNMRAEDVTDTLDLALAASGRDCATVLHKPRLLSDNGPSYIAGELAEYIEAKKMSHIRGAPCHPQTQGKIERWHQTLKNRILLENYFLPGDLEAQIEAF
VEHYNHQRYHESLNNVTPADAYFGRAPDIIKQRERIKRKTIEHRRLQHRKLAA
ALKECVADLTLENRLLKKHDRGWGRRRMRYPASEKLEIIRIVEQSHLPARQTLDHLGIARRTFYRWYDRYREGGPEALEDRPSAPSRVWNRIGEDIRDQI
VEMALEATDLSPRELAVRFTDERQYFVSEATVYRLLKAHDLITSPAYVVIKAADQFHTKTTRPNEMWQTDFTYFKIIGWGWMYLSTVLDDFSRYIIAWKL
CSNMRAEDVTDTLDLALAASGRDCATVLHKPRLLSDNGPSYIAGELAEYIEAKKMSHIRGAPCHPQTQGKIERWHQTLKNRILLENYFLPGDLEAQIEAF
VEHYNHQRYHESLNNVTPADAYFGRAPDIIKQRERIKRKTIEHRRLQHRKLAA
Blast result :
Comments
ISPko4 is 93% aa similar to ISSsp2.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible +1 frameshift.
ISPko4 was identified by in silico nucleotide sequence analysis of Paracoccus kondratievae plasmid pKON1 (95 kb). This IS is present in 2 copies in the pKON1 genome (1 copy of ISPko4 and 1 copy of its isoform ISPko4a).
The third ORF is a putative ORFAB transposase reconstructed in silico by possible +1 frameshift.
ISPko4 was identified by in silico nucleotide sequence analysis of Paracoccus kondratievae plasmid pKON1 (95 kb). This IS is present in 2 copies in the pKON1 genome (1 copy of ISPko4 and 1 copy of its isoform ISPko4a).
References
1] Czarnecki J. (2015) Direct submission