ISPsy37
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| CP012179 | ND | Pseudomonas syringae | Pseudomonas syringae pv. actinidiae Pseudomonas syringae pv. actinidiae (ICMP18708) |
DNA section
IS Length : 1215 bp
Ends
IR Length : 14
IRL : ccggacacctcaatgggtgaaactacacccattgaggaatcacaatgacc
IRR : ccggacacctcaatcggtgatcgtcaggccgcttgccgctcatattgatt
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|
DNA sequence
ccggacacctcaatgggtgaaactacacccattgaggaatcacaatgaccaagaaatacagaaagttcgatgcagccttcaagcttgatgtctgcaagct
gatcgtcgatcagggccagagtgtgaactcggtctgtctcgacatgaatctgagtgatacggcagtgcggcgctgggttgagcaatacaaggctgagctg
ttgggtgggcctggaattggcaagccgttaaccaatgagcagcaacggattcgtcagttggagcagcagattcgtgagctgaaaatggataacgacatcc
taaaaaaagctacggccttctttgcccgcgaattgaagtgatccatcaactggttcaccaattacaacgcaaggcctacccggtggctcgtatctgccgg
gttttgcggatcagtcgttcagggttctatgaagctcatcaacgtcgccagaagcccaagcctgcctgcccggcagcggccatgataaaggtgacgttcg
agtcaacagagcactgctacggtagtcgccgcttgctgagcacgctgcgcaatgaaggtgtttccatcggtcgcttcaaggttcgtcgcctcatgaaaca
acagggtttgcgcccgatctggaagcgcaagtttgtccatacaagcaacagtaatcacaacttgccggtggctgaaaatcttctcaaccgccagttcaac
cctgaggcaatcaatcagtcatgggttgcggatatcacgtatatccgcacgcgaagcggttgggtgtatctggccgcagtcatggacttgttctcgcgta
agatcgtgggatgggccatggcaccccatatgcgggccgagttggtgactagcgcgatgcagctagccatcgctcaaaggcggcctgagccgggtctgat
tgcccactcggatagaggaagtcagtacgcaggagcggcttatcaggccttgctggctcgcaacgggatgcgttgcagcatgagccgaaaaggtaactgt
tgggacaatgcagtgatggagcgcttcttcctgaacctgaaaatggagcgcacctggagaaaagattacgccaaccacggcgaagcaataaaggacatca
cggattacatcgtgcggttctacaacgaggggcgattgcactcgacactgggctacgtgccgcccaatcaatatgagcggcaagcggcctgacgatcacc
gattgaggtgtccgg
gatcgtcgatcagggccagagtgtgaactcggtctgtctcgacatgaatctgagtgatacggcagtgcggcgctgggttgagcaatacaaggctgagctg
ttgggtgggcctggaattggcaagccgttaaccaatgagcagcaacggattcgtcagttggagcagcagattcgtgagctgaaaatggataacgacatcc
taaaaaaagctacggccttctttgcccgcgaattgaagtgatccatcaactggttcaccaattacaacgcaaggcctacccggtggctcgtatctgccgg
gttttgcggatcagtcgttcagggttctatgaagctcatcaacgtcgccagaagcccaagcctgcctgcccggcagcggccatgataaaggtgacgttcg
agtcaacagagcactgctacggtagtcgccgcttgctgagcacgctgcgcaatgaaggtgtttccatcggtcgcttcaaggttcgtcgcctcatgaaaca
acagggtttgcgcccgatctggaagcgcaagtttgtccatacaagcaacagtaatcacaacttgccggtggctgaaaatcttctcaaccgccagttcaac
cctgaggcaatcaatcagtcatgggttgcggatatcacgtatatccgcacgcgaagcggttgggtgtatctggccgcagtcatggacttgttctcgcgta
agatcgtgggatgggccatggcaccccatatgcgggccgagttggtgactagcgcgatgcagctagccatcgctcaaaggcggcctgagccgggtctgat
tgcccactcggatagaggaagtcagtacgcaggagcggcttatcaggccttgctggctcgcaacgggatgcgttgcagcatgagccgaaaaggtaactgt
tgggacaatgcagtgatggagcgcttcttcctgaacctgaaaatggagcgcacctggagaaaagattacgccaaccacggcgaagcaataaaggacatca
cggattacatcgtgcggttctacaacgaggggcgattgcactcgacactgggctacgtgccgcccaatcaatatgagcggcaagcggcctgacgatcacc
gattgaggtgtccgg
Recoding section
- Recoding by frameshift
- Frame -1
- Type translational
- Experimentally demonstrated No
Stimulators :
- Shine-Dalgarno sequence : No
- Secondary structure :
Recoding motif :
Protein section
ORF number : 3
ORF 1
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 297 bp | 98 aa | 45 | 341 | + | No |
Description : First part of the transposase
ORF sequence :
MTKKYRKFDAAFKLDVCKLIVDQGQSVNSVCLDMNLSDTAVRRWVEQYKAELLGGPGIGKPLTNEQQRIRQLEQQIRELKMDNDILKKATAFFARELK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 900 bp | 299 aa | 293 | 1192 | + | No |
Description : Second part of the transposase
ORF sequence :
RHPKKSYGLLCPRIEVIHQLVHQLQRKAYPVARICRVLRISRSGFYEAHQRRQKPKPACPAAAMIKVTFESTEHCYGSRRLLSTLRNEGVSIGRFKVRRL
MKQQGLRPIWKRKFVHTSNSNHNLPVAENLLNRQFNPEAINQSWVADITYIRTRSGWVYLAAVMDLFSRKIVGWAMAPHMRAELVTSAMQLAIAQRRPEP
GLIAHSDRGSQYAGAAYQALLARNGMRCSMSRKGNCWDNAVMERFFLNLKMERTWRKDYANHGEAIKDITDYIVRFYNEGRLHSTLGYVPPNQYERQAA
MKQQGLRPIWKRKFVHTSNSNHNLPVAENLLNRQFNPEAINQSWVADITYIRTRSGWVYLAAVMDLFSRKIVGWAMAPHMRAELVTSAMQLAIAQRRPEP
GLIAHSDRGSQYAGAAYQALLARNGMRCSMSRKGNCWDNAVMERFFLNLKMERTWRKDYANHGEAIKDITDYIVRFYNEGRLHSTLGYVPPNQYERQAA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1148 bp | 382 aa | 45 | 1192 | + | Yes |
Chemistry : DDE
ORF sequence :
MTKKYRKFDAAFKLDVCKLIVDQGQSVNSVCLDMNLSDTAVRRWVEQYKAELLGGPGIGKPLTNEQQRIRQLEQQIRELKMDNDILKKSYGLLCPRIEVI
HQLVHQLQRKAYPVARICRVLRISRSGFYEAHQRRQKPKPACPAAAMIKVTFESTEHCYGSRRLLSTLRNEGVSIGRFKVRRLMKQQGLRPIWKRKFVHT
SNSNHNLPVAENLLNRQFNPEAINQSWVADITYIRTRSGWVYLAAVMDLFSRKIVGWAMAPHMRAELVTSAMQLAIAQRRPEPGLIAHSDRGSQYAGAAY
QALLARNGMRCSMSRKGNCWDNAVMERFFLNLKMERTWRKDYANHGEAIKDITDYIVRFYNEGRLHSTLGYVPPNQYERQAA
HQLVHQLQRKAYPVARICRVLRISRSGFYEAHQRRQKPKPACPAAAMIKVTFESTEHCYGSRRLLSTLRNEGVSIGRFKVRRLMKQQGLRPIWKRKFVHT
SNSNHNLPVAENLLNRQFNPEAINQSWVADITYIRTRSGWVYLAAVMDLFSRKIVGWAMAPHMRAELVTSAMQLAIAQRRPEPGLIAHSDRGSQYAGAAY
QALLARNGMRCSMSRKGNCWDNAVMERFFLNLKMERTWRKDYANHGEAIKDITDYIVRFYNEGRLHSTLGYVPPNQYERQAA
Blast result :Comments : The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
Comments
The transposase (orf3) is 74% aa similar to ISKpn18.
References
1] Butler M.I. (2017) Direct submission to ISfinder
2] Butler MI, Stockwell PA, Black MA, Day RC, Lamont IL, Poulter RTM. (2013) PLoS ONE. 2013; 8(2): e57464. doi: 10.1371/journal.pone.0057464 PMID: 23555547
2] Butler MI, Stockwell PA, Black MA, Day RC, Lamont IL, Poulter RTM. (2013) PLoS ONE. 2013; 8(2): e57464. doi: 10.1371/journal.pone.0057464 PMID: 23555547