ISCpr4
- Family IS1
- Group
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_005861 | ND | Candidatus Protochlamydia | Candidatus Protochlamydia amoebophila UWE25 |
DNA section
IS Length : 826 bp
Ends
IR Length : 21/23
IRL : GGTAGCCCTAAATATGTAGTGCTAAACGGTTAAAGAAAATATTGGGTAAG
IRR : GGTAGTCCTAAACATGTAGTGCTCTCATGTGTAAGTTGTAGTCACAGATG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TCTTGGGCTTTTT | CT | CAACCAGGTGGGGGTAAGCC | 2 |
DNA sequence
GGTAGCCCTAAATATGTAGTGCTAAACGGTTAAAGAAAATATTGGGTAAGTGCATAATAGGCGGCGTCTTTTAAAATGGAGTCACCTATGGAATGTATAT
GCCCCTCTTGTACGTCAGATTGGATCAAAAAAAAGGTCATATCCACAACGGAAAACAGAAATATCAGTGTTTGGCATGTGGAAGACAGTTTGTGCTTAAC
CCATCCCAGAAAATCATTGACGAAAGAACCAGGCTTTTGACCAAGAAGACTCTATTAGAGTGCATTGCTCTTGAAGGAGTATGTTGGGTATTTGACGTCA
GTATGCCTTGGCTTTTGGAATTCATAGGGGAGCTGACCAAAGAGCTGCCAGAAAACTTGAATGCGGAAGTAGTGTCAGAAAATGATGAGCTTGAAGTAGT
TGTACTTGAAGTAGATGAATTGTGGAGCTACGTCGGCTCGAAGGCCAACCCACAATGGTTATGGTTAGTAATGCACTCTAAAACGCGACAGGTGGTTGCC
ATGCAAATAGGGCCTCGAAATAAAGAGACCGCAGAGAAGTTGCTCTACAAGCTACCCACACCGTTAAAAAAAAGCCGAGTACTATACTGACTTCTTCGCT
GTGTACTTTGAGAGCATCCCATTTGGACAACATAGACCGGTTGGCAAACAATCAGATAAAACATCTTATATTGAAAGACTTAATTGCACCCTCGGATACC
GATGCTCACGGTTCGTAGGGAAAACCCTTTCGTTTTCTAAGAAGCTTATAAACCACATAGGCATGATCACATCCTTCATCTGTGACTACAACTTACACAT
GAGAGCACTACATGTTTAGGACTACC
GCCCCTCTTGTACGTCAGATTGGATCAAAAAAAAGGTCATATCCACAACGGAAAACAGAAATATCAGTGTTTGGCATGTGGAAGACAGTTTGTGCTTAAC
CCATCCCAGAAAATCATTGACGAAAGAACCAGGCTTTTGACCAAGAAGACTCTATTAGAGTGCATTGCTCTTGAAGGAGTATGTTGGGTATTTGACGTCA
GTATGCCTTGGCTTTTGGAATTCATAGGGGAGCTGACCAAAGAGCTGCCAGAAAACTTGAATGCGGAAGTAGTGTCAGAAAATGATGAGCTTGAAGTAGT
TGTACTTGAAGTAGATGAATTGTGGAGCTACGTCGGCTCGAAGGCCAACCCACAATGGTTATGGTTAGTAATGCACTCTAAAACGCGACAGGTGGTTGCC
ATGCAAATAGGGCCTCGAAATAAAGAGACCGCAGAGAAGTTGCTCTACAAGCTACCCACACCGTTAAAAAAAAGCCGAGTACTATACTGACTTCTTCGCT
GTGTACTTTGAGAGCATCCCATTTGGACAACATAGACCGGTTGGCAAACAATCAGATAAAACATCTTATATTGAAAGACTTAATTGCACCCTCGGATACC
GATGCTCACGGTTCGTAGGGAAAACCCTTTCGTTTTCTAAGAAGCTTATAAACCACATAGGCATGATCACATCCTTCATCTGTGACTACAACTTACACAT
GAGAGCACTACATGTTTAGGACTACC
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 | |
|---|---|---|---|---|---|
| 492 bp | 163 aa | 99 | 590 | + | No |
Description : First part of the transposase
ORF sequence :
MPLLYVRLDQKKGHIHNGKQKYQCLACGRQFVLNPSQKIIDERTRLLTKKTLLECIALEGVCWVFDVSMPWLLEFIGELTKELPENLNAEVVSENDELEV
VVLEVDELWSYVGSKANPQWLWLVMHSKTRQVVAMQIGPRNKETAEKLLYKLPTPLKKSRVLY
VVLEVDELWSYVGSKANPQWLWLVMHSKTRQVVAMQIGPRNKETAEKLLYKLPTPLKKSRVLY
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 252 bp | 83 aa | 568 | 819 | + | No |
Description : Second part of the transposase
ORF sequence :
KKAEYYTDFFAVYFESIPFGQHRPVGKQSDKTSYIERLNCTLGYRCSRFVGKTLSFSKKLINHIGMITSFICDYNLHMRALHV
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 721 bp | 239 aa | 99 | 819 | + | Yes |
Chemistry : DDE
ORF sequence :
MPLLYVRLDQKKGHIHNGKQKYQCLACGRQFVLNPSQKIIDERTRLLTKKTLLECIALEGVCWVFDVSMPWLLEFIGELTKELPENLNAEVVSENDELEV
VVLEVDELWSYVGSKANPQWLWLVMHSKTRQVVAMQIGPRNKETAEKLLYKLPTPLKKAEYYTDFFAVYFESIPFGQHRPVGKQSDKTSYIERLNCTLGY
RCSRFVGKTLSFSKKLINHIGMITSFICDYNLHMRALHV
VVLEVDELWSYVGSKANPQWLWLVMHSKTRQVVAMQIGPRNKETAEKLLYKLPTPLKKAEYYTDFFAVYFESIPFGQHRPVGKQSDKTSYIERLNCTLGY
RCSRFVGKTLSFSKKLINHIGMITSFICDYNLHMRALHV
Blast result :
Comments
ISCpr4 is 76% aa similar to ISCpr1.
The third ORf is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
The third ORf is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Horn,M., Collingro,A., Schmitz-Esser,S., Beier,C.L., Purkhold,U., Fartmann,B., Brandt,P., Nyakatura,G.J., Droege,M., Frishman,D., Rattei,T., Mewes,H.W. and Wagner,M.(2004) Science 304 (5671), 728-730