ISThsp6
- Family IS5
- Group IS427
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| ND | Thiomonas sp. | Thiomonas sp. 3As |
DNA section
IS Length : 843 bp
Ends
IR Length : 16/22
IRL : GATATCGTCGTCACGAGTTGTGGCATGATGGCGCTGTTTGGCGCTGTTCA
IRR : GATAGTGACGTCACAAGATTTGCAGCCAGAGGGCAAGGCAGCGAATTTGC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GTTGATGACTT | TA | CCGCCGCAAGGAG | 2 |
| TTGACAGAGCC | TA | AACATTCGCTGTG | 2 |
DNA sequence
GATATCGTCGTCACGAGTTGTGGCATGATGGCGCTGTTTGGCGCTGTTCATACCAACCGCGCTATTGAGATGCCCGAGACGCTTCCTCGACACGATCTAT
CAGATCGGCACTGGGAATTGCTCGAACCCCACTTGCCTGGACGAGCGGGAGTTTGGGGCGGGGTTGCGCGGGACAACCGCCAATTCATCAACGCCGTGTT
CTGGATTCTTCGCACCGGTGCGCCGTGGCGAGACCTGCCGGTTTCGTACGGTGGGTGGAAAAACACCCATCGGCGTTTTTGCCGCTGGCGCGACAAGGGC
ATTTGGGAGTCGCTCCTGGAGCAGTGCATTGATGAGCCCGATTTCGAGTGGATCATGATCGATGCCAGTCACTGCAAGGTTCATCCGCACGCAGCGGGTG
CGCGGGGTGGCAATCAGGCGATGAGCCGCACACAAGGGGGCTCAACACCAAGATACATCTGGCCGTGGATGCGCATGGTCTGCCGCTCCGAGCGGTTATT
ACAGAAGGTACCCGAGCGGATTGTGCAGAGGCTGAGCGGTTGATGGACGGGTTCAAGATGGACTACCTGCTTGCCGACAAAGGCTACGACAGTGACGCCA
TCGTGGCGCATGCCCAAGCGCAAGGCGCGCAAGCCGTGATTCCGCCACGCAAGCACCGCAAGCCACCCCGCACGTATGACAAAGCACTCTACAAACTACG
TCACCTGGTCGAGAACGCCTTCCTGCATCTCAAGCGGTGGCGGGGCATCGCCACGCGCTACGCGAAAAACGTCGCCTCATTCGTTGCCGCCGTGCAAATT
CGCTGCCTTGCCCTCTGGCTGCAAATCTTGTGACGTCACTATC
CAGATCGGCACTGGGAATTGCTCGAACCCCACTTGCCTGGACGAGCGGGAGTTTGGGGCGGGGTTGCGCGGGACAACCGCCAATTCATCAACGCCGTGTT
CTGGATTCTTCGCACCGGTGCGCCGTGGCGAGACCTGCCGGTTTCGTACGGTGGGTGGAAAAACACCCATCGGCGTTTTTGCCGCTGGCGCGACAAGGGC
ATTTGGGAGTCGCTCCTGGAGCAGTGCATTGATGAGCCCGATTTCGAGTGGATCATGATCGATGCCAGTCACTGCAAGGTTCATCCGCACGCAGCGGGTG
CGCGGGGTGGCAATCAGGCGATGAGCCGCACACAAGGGGGCTCAACACCAAGATACATCTGGCCGTGGATGCGCATGGTCTGCCGCTCCGAGCGGTTATT
ACAGAAGGTACCCGAGCGGATTGTGCAGAGGCTGAGCGGTTGATGGACGGGTTCAAGATGGACTACCTGCTTGCCGACAAAGGCTACGACAGTGACGCCA
TCGTGGCGCATGCCCAAGCGCAAGGCGCGCAAGCCGTGATTCCGCCACGCAAGCACCGCAAGCCACCCCGCACGTATGACAAAGCACTCTACAAACTACG
TCACCTGGTCGAGAACGCCTTCCTGCATCTCAAGCGGTGGCGGGGCATCGCCACGCGCTACGCGAAAAACGTCGCCTCATTCGTTGCCGCCGTGCAAATT
CGCTGCCTTGCCCTCTGGCTGCAAATCTTGTGACGTCACTATC
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 | |
|---|---|---|---|---|---|
| 519 bp | 172 aa | 25 | 543 | + | No |
Description : First part of the transposase
ORF sequence :
MMALFGAVHTNRAIEMPETLPRHDLSDRHWELLEPHLPGRAGVWGGVARDNRQFINAVFWILRTGAPWRDLPVSYGGWKNTHRRFCRWRDKGIWESLLEQ
CIDEPDFEWIMIDASHCKVHPHAAGARGGNQAMSRTQGGSTPRYIWPWMRMVCRSERLLQKVPERIVQRLSG
CIDEPDFEWIMIDASHCKVHPHAAGARGGNQAMSRTQGGSTPRYIWPWMRMVCRSERLLQKVPERIVQRLSG
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 498 bp | 145 aa | 336 | 833 | + | No |
Description : Second part of the transposase
ORF sequence :
ARFRVDHDDEPHTRGLNTKIHLAVDAHGLPLRAVITEGTRADCAEAERLMDGFKMDYLLADKGYDSDAIVAHAQAQGAQAVIPPRKHRKPPRTYDKALYK
LRHLVENAFLHLKRWRGIATRYAKNVASFVAAVQIRCLALWLQIL
LRHLVENAFLHLKRWRGIATRYAKNVASFVAAVQIRCLALWLQIL
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 809 bp | 269 aa | 25 | 833 | + | Yes |
Chemistry : DDE
ORF sequence :
MMALFGAVHTNRAIEMPETLPRHDLSDRHWELLEPHLPGRAGVWGGVARDNRQFINAVFWILRTGAPWRDLPVSYGGWKNTHRRFCRWRDKGIWESLLEQ
CIDEPDFEWIMIDASHCKVHPHAAGARGGNQAMSRTQGGLNTKIHLAVDAHGLPLRAVITEGTRADCAEAERLMDGFKMDYLLADKGYDSDAIVAHAQAQ
GAQAVIPPRKHRKPPRTYDKALYKLRHLVENAFLHLKRWRGIATRYAKNVASFVAAVQIRCLALWLQIL
CIDEPDFEWIMIDASHCKVHPHAAGARGGNQAMSRTQGGLNTKIHLAVDAHGLPLRAVITEGTRADCAEAERLMDGFKMDYLLADKGYDSDAIVAHAQAQ
GAQAVIPPRKHRKPPRTYDKALYKLRHLVENAFLHLKRWRGIATRYAKNVASFVAAVQIRCLALWLQIL
Blast result :
Comments
ISThsp6 is 86% aa similar to ISMasp6. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Stephanie Weiss (2008) Direct annotation.