ISPpa6
- Family IS5
- Group IS427
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
EU909900 | Y | Paracoccus pantotrophus | Paracoccus pantotrophus DSM 11073 |
DNA section
IS Length : 850 bp
Ends
IR Length : 12/15
IRL : GGGTGTGTTGACAAAAAGGATTCCCCTGCGCGGTCGGCTGTGATTCAAGC
IRR : GGTCATGTTGACAAATGGCGAAGCCAGAGCCTGATGCAGGCGATATCGAT
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
TTCTCAAAGT | TA | GCGTTGAAGA | 2 |
DNA sequence
GGGTGTGTTGACAAAAAGGATTCCCCTGCGCGGTCGGCTGTGATTCAAGCTCATCTCTACATGGGGATGAGCTTGGCACGCAACCTGATGTCCGACGACG
AATGGGCATTCTTTGAGGGCTTCATCCGAGCGGCTCGGCATCCGAACGGGCGCAAGCCTACGGACCATCGACTTGTTCTGGATGGTATTTTCTGGGTCGC
GCGGACCGGTGCGCCCTGGCGGGACCTGCCAGAGGAGTTTGGCAAGTGGTCATCGGTCTATCGGCAGTTCCGGCGCTGGACGCTCGCCGGGCTGTGGGAG
GACATCCTGGATGTCTTGAACCACGCGAAGCTTGCGCCCGACAAGCTCCAGATGATCGACAGCACCGTGATCAGGGCCCACCACCATGCGGCGGGCGCAA
AAGGGGGGCTCCGAAAGAGGCTCTTGGCCGTTCAAGAGGTGGGTTCTCGACCAAAATCCATCTCCGCGTTAACGGCGCTGGCCTCCCGATGAGGACCGAG
ATCACGCCCGGGCAGCATTCAGACTACACGGGCTATGATCTGGTGATGGCCGACAACCTGCCGCAGCCCGCCGTGTTGGTCGCCGACAGGGGTTATGACG
CTGATAAAATTCGAGAAGACATCGAGAGCCGTAACGCGCTGCCCATGATCCCGATGCGAAAGAACCGCAGGGTGCGCAAGGTGGTCGACATGACGATCTA
TACCCTGCGCAACATGGTCGAGCGGTGCTTCAACAAACTCAAGAACAGTCGCCGCTTGGCAACCCGCTACGACAAAACCGCAGACAGTTTCCTCGGCTTC
ATCGATATCGCCTGCATCAGGCTCTGGCTTCGCCATTTGTCAACATGACC
AATGGGCATTCTTTGAGGGCTTCATCCGAGCGGCTCGGCATCCGAACGGGCGCAAGCCTACGGACCATCGACTTGTTCTGGATGGTATTTTCTGGGTCGC
GCGGACCGGTGCGCCCTGGCGGGACCTGCCAGAGGAGTTTGGCAAGTGGTCATCGGTCTATCGGCAGTTCCGGCGCTGGACGCTCGCCGGGCTGTGGGAG
GACATCCTGGATGTCTTGAACCACGCGAAGCTTGCGCCCGACAAGCTCCAGATGATCGACAGCACCGTGATCAGGGCCCACCACCATGCGGCGGGCGCAA
AAGGGGGGCTCCGAAAGAGGCTCTTGGCCGTTCAAGAGGTGGGTTCTCGACCAAAATCCATCTCCGCGTTAACGGCGCTGGCCTCCCGATGAGGACCGAG
ATCACGCCCGGGCAGCATTCAGACTACACGGGCTATGATCTGGTGATGGCCGACAACCTGCCGCAGCCCGCCGTGTTGGTCGCCGACAGGGGTTATGACG
CTGATAAAATTCGAGAAGACATCGAGAGCCGTAACGCGCTGCCCATGATCCCGATGCGAAAGAACCGCAGGGTGCGCAAGGTGGTCGACATGACGATCTA
TACCCTGCGCAACATGGTCGAGCGGTGCTTCAACAAACTCAAGAACAGTCGCCGCTTGGCAACCCGCTACGACAAAACCGCAGACAGTTTCCTCGGCTTC
ATCGATATCGCCTGCATCAGGCTCTGGCTTCGCCATTTGTCAACATGACC
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 | |
---|---|---|---|---|---|
432 bp | 143 aa | 61 | 492 | + | No |
Description : First part of the transposase
ORF sequence :
MGMSLARNLMSDDEWAFFEGFIRAARHPNGRKPTDHRLVLDGIFWVARTGAPWRDLPEEFGKWSSVYRQFRRWTLAGLWEDILDVLNHAKLAPDKLQMID
STVIRAHHHAAGAKGGLRKRLLAVQEVGSRPKSISALTALASR
STVIRAHHHAAGAKGGLRKRLLAVQEVGSRPKSISALTALASR
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
657 bp | 218 aa | 192 | 848 | + | No |
Description : Second part of the transposase
ORF sequence :
LGRADRCALAGPARGVWQVVIGLSAVPALDARRAVGGHPGCLEPREACARQAPDDRQHRDQGPPPCGGRKRGAPKEALGRSRGGFSTKIHLRVNGAGLPM
RTEITPGQHSDYTGYDLVMADNLPQPAVLVADRGYDADKIREDIESRNALPMIPMRKNRRVRKVVDMTIYTLRNMVERCFNKLKNSRRLATRYDKTADSF
LGFIDIACIRLWLRHLST
RTEITPGQHSDYTGYDLVMADNLPQPAVLVADRGYDADKIREDIESRNALPMIPMRKNRRVRKVVDMTIYTLRNMVERCFNKLKNSRRLATRYDKTADSF
LGFIDIACIRLWLRHLST
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
788 bp | 262 aa | 61 | 848 | + | Yes |
Chemistry : DDE
ORF sequence :
MGMSLARNLMSDDEWAFFEGFIRAARHPNGRKPTDHRLVLDGIFWVARTGAPWRDLPEEFGKWSSVYRQFRRWTLAGLWEDILDVLNHAKLAPDKLQMID
STVIRAHHHAAGAKRGAPKEALGRSRGGFSTKIHLRVNGAGLPMRTEITPGQHSDYTGYDLVMADNLPQPAVLVADRGYDADKIREDIESRNALPMIPMR
KNRRVRKVVDMTIYTLRNMVERCFNKLKNSRRLATRYDKTADSFLGFIDIACIRLWLRHLST
STVIRAHHHAAGAKRGAPKEALGRSRGGFSTKIHLRVNGAGLPMRTEITPGQHSDYTGYDLVMADNLPQPAVLVADRGYDADKIREDIESRNALPMIPMR
KNRRVRKVVDMTIYTLRNMVERCFNKLKNSRRLATRYDKTADSFLGFIDIACIRLWLRHLST
Blast result :
Comments
ISPpa6 (orfAB) is 96% aa sililar to ISPaes1.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
ISPpa6 has been identified by its transposition into entrapment vector pMEC1 (cI-tetA cassette).
At position 390, ISPpa6 contains a sequence 5'-AAAAG-3' that might function as a -1 translational frameshifting site.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
ISPpa6 has been identified by its transposition into entrapment vector pMEC1 (cI-tetA cassette).
At position 390, ISPpa6 contains a sequence 5'-AAAAG-3' that might function as a -1 translational frameshifting site.
References
1] Dziewit, L., Baj, J., Szuplewska, M., Maj A., Tabin, M., Czyzkowska, A., Skrzypczyk, G., Adamczuk, M., Sitarek, T., Stawinski, P., Tudek, A., Wanasz, K., Wardal, E., Piechucka, E., Bartosik, D. (2012) PLoS ONE 7: e32277