ISSpe1
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_009901 | ND | Shewanella pealeana | Shewanella pealeana ATCC 700345 |
DNA section
IS Length : 1308 bp
Ends
IR Length : 22/30
IRL : TGTCTTGTCCTGAAATGTGTTTACACATTTAGGACTTTATAATGACTACA
IRR : TGTCCCGTCCTGAAATAGGTTGACGGTTTTTACTAGACCAGTAGCTTCTG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TTTTTGTGTT | CAG | AGTAGAATTG | 3 |
| TTTTGTATCT | AGA | ATACTATCGG | 3 |
| TTTTTTATTT | TCA | TCCATTAATT | 3 |
| TTTTTGTTTT | TAT | GGTGCCGGCA | 3 |
| TTTTTGTTTG | CGA | CCCTAAACTC | 3 |
| TTTATGTTTT | CTT | AGTCGGTTCG | 3 |
| TTTTTTGTTT | GAG | CGTTTAATAC | 3 |
| TTTGTATTTA | AGG | CTAAAGACGT | 3 |
| TTTTTATTAA | TCA | ATATGTACTG | 3 |
| TTTTTATTTT | CAG | CTATGTCCCC | 3 |
| TTATTTATAA | AAG | CGAAGTATGA | 3 |
DNA sequence
TGTCTTGTCCTGAAATGTGTTTACACATTTAGGACTTTATAATGACTACACCAATACCAGCCCGCGTTAAGCGAACACAGCGAGATTATTCGTTAGGCTT
TAAATTACAAGTTGTAGCTGCCGTAGAAAAAGGCGATATGACTTATAAACAAGCTCAAACAACCTATGGCATCCAAGGTCGCTCCACGGTACTTACTTGG
CTTAGAAAGCACGGTAAGATGGACTGGACTCAACCAGTGAGAATGACTATGCCAAAAACAACTAAAGCTAAAGAAACCCCAGCTCAAAAGATTAAGCGCC
TTGAAAAAGAGCTGGAAGATGAGCACTTACGTAATCTATTACTCAATGAAGCCGTTGATATTATTGATGCAGAATATGGAGCTGGCCTTAGAAAAAAGTA
CTTAGCCAGGGAGCGAGAAGTCTTCAAAAACAGAAAGTAACGAGCTTAAATCGCGCTTGTAAGCTTCTGGGTATAACAAGACAAGCTATCTATCAAAGAG
AACGAAGAGCGAATTGTAGAGCAATGGAGTTAGCCCCTGTAAGAGCGATGATACTAGATATCCGTCGGTTTATGCCTCGGATTGGTGGCAAGAAACTCTA
CTTTTTACTTAAACCTAAGTTCATCGAGAAAGGGATTAAACTTGGGCGCGATAACTTCTTTAGTTACTTGAAAAGTGAAGGCTTGTTAGTCAAACCTAAG
CGTAATTATACCAAGACGACTAACAGTAAACATTGGATGAAGAAACATCCAAATTTACTGAAAGAGTTAGTGCCAACAGCACCTGAAGAGGTGTTTGTTA
GTGATATAACATATGTGCAATCAGAGCAAGGCATACATTATCTATCATTGGTAACTGACGCGTTCAGTCGTAAAATAATGGGATATGAATTAAGTAATGA
AATGAAAGCTACAGACGTAGTCAAAGCGTTAGAAATGACGATAAGTAATCGGCAGTATCAACATCGAGCAGTGCATCACTCAGACAGAGGGTTACAGTAT
TGCTCTGCCGTTTATCAGTTAGCGTTGCAAAGAAGTGACATCCGCGCATCAATGACCGATGGATATGACTGCTACCAAAACGCACTAGCAGAACGTATAA
ATGGGATATTAAAGCAAGAGTTTCTATTATCTCCTTGCTGCAACCTTAATGAGTTAAAGCAACTCGTTGAGGAGTCAATTTTTATATACAATGAGCTGAG
ACCGCACTTAAGCTTGGGTATGAAAACACCTAATCAAGTGCATAAAAAAGACCAGCAGCAGAAGCTACTGGTCTAGTAAAAACCGTCAACCTATTTCAGG
ACGGGACA
TAAATTACAAGTTGTAGCTGCCGTAGAAAAAGGCGATATGACTTATAAACAAGCTCAAACAACCTATGGCATCCAAGGTCGCTCCACGGTACTTACTTGG
CTTAGAAAGCACGGTAAGATGGACTGGACTCAACCAGTGAGAATGACTATGCCAAAAACAACTAAAGCTAAAGAAACCCCAGCTCAAAAGATTAAGCGCC
TTGAAAAAGAGCTGGAAGATGAGCACTTACGTAATCTATTACTCAATGAAGCCGTTGATATTATTGATGCAGAATATGGAGCTGGCCTTAGAAAAAAGTA
CTTAGCCAGGGAGCGAGAAGTCTTCAAAAACAGAAAGTAACGAGCTTAAATCGCGCTTGTAAGCTTCTGGGTATAACAAGACAAGCTATCTATCAAAGAG
AACGAAGAGCGAATTGTAGAGCAATGGAGTTAGCCCCTGTAAGAGCGATGATACTAGATATCCGTCGGTTTATGCCTCGGATTGGTGGCAAGAAACTCTA
CTTTTTACTTAAACCTAAGTTCATCGAGAAAGGGATTAAACTTGGGCGCGATAACTTCTTTAGTTACTTGAAAAGTGAAGGCTTGTTAGTCAAACCTAAG
CGTAATTATACCAAGACGACTAACAGTAAACATTGGATGAAGAAACATCCAAATTTACTGAAAGAGTTAGTGCCAACAGCACCTGAAGAGGTGTTTGTTA
GTGATATAACATATGTGCAATCAGAGCAAGGCATACATTATCTATCATTGGTAACTGACGCGTTCAGTCGTAAAATAATGGGATATGAATTAAGTAATGA
AATGAAAGCTACAGACGTAGTCAAAGCGTTAGAAATGACGATAAGTAATCGGCAGTATCAACATCGAGCAGTGCATCACTCAGACAGAGGGTTACAGTAT
TGCTCTGCCGTTTATCAGTTAGCGTTGCAAAGAAGTGACATCCGCGCATCAATGACCGATGGATATGACTGCTACCAAAACGCACTAGCAGAACGTATAA
ATGGGATATTAAAGCAAGAGTTTCTATTATCTCCTTGCTGCAACCTTAATGAGTTAAAGCAACTCGTTGAGGAGTCAATTTTTATATACAATGAGCTGAG
ACCGCACTTAAGCTTGGGTATGAAAACACCTAATCAAGTGCATAAAAAAGACCAGCAGCAGAAGCTACTGGTCTAGTAAAAACCGTCAACCTATTTCAGG
ACGGGACA
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 | |
|---|---|---|---|---|---|
| 399 bp | 132 aa | 42 | 440 | + | No |
Description : First part of the transposase
ORF sequence :
MTTPIPARVKRTQRDYSLGFKLQVVAAVEKGDMTYKQAQTTYGIQGRSTVLTWLRKHGKMDWTQPVRMTMPKTTKAKETPAQKIKRLEKELEDEHLRNLL
LNEAVDIIDAEYGAGLRKKYLAREREVFKNRK
LNEAVDIIDAEYGAGLRKKYLAREREVFKNRK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 879 bp | 292 aa | 398 | 1276 | + | No |
Description : Second part of the transposase
ORF sequence :
VLSQGARSLQKQKVTSLNRACKLLGITRQAIYQRERRANCRAMELAPVRAMILDIRRFMPRIGGKKLYFLLKPKFIEKGIKLGRDNFFSYLKSEGLLVKP
KRNYTKTTNSKHWMKKHPNLLKELVPTAPEEVFVSDITYVQSEQGIHYLSLVTDAFSRKIMGYELSNEMKATDVVKALEMTISNRQYQHRAVHHSDRGLQ
YCSAVYQLALQRSDIRASMTDGYDCYQNALAERINGILKQEFLLSPCCNLNELKQLVEESIFIYNELRPHLSLGMKTPNQVHKKDQQQKLLV
KRNYTKTTNSKHWMKKHPNLLKELVPTAPEEVFVSDITYVQSEQGIHYLSLVTDAFSRKIMGYELSNEMKATDVVKALEMTISNRQYQHRAVHHSDRGLQ
YCSAVYQLALQRSDIRASMTDGYDCYQNALAERINGILKQEFLLSPCCNLNELKQLVEESIFIYNELRPHLSLGMKTPNQVHKKDQQQKLLV
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1235 bp | 411 aa | 42 | 1276 | + | Yes |
Chemistry : DDE
ORF sequence :
MTTPIPARVKRTQRDYSLGFKLQVVAAVEKGDMTYKQAQTTYGIQGRSTVLTWLRKHGKMDWTQPVRMTMPKTTKAKETPAQKIKRLEKELEDEHLRNLL
LNEAVDIIDAEYGAGLRKKVLSQGARSLQKQKVTSLNRACKLLGITRQAIYQRERRANCRAMELAPVRAMILDIRRFMPRIGGKKLYFLLKPKFIEKGIK
LGRDNFFSYLKSEGLLVKPKRNYTKTTNSKHWMKKHPNLLKELVPTAPEEVFVSDITYVQSEQGIHYLSLVTDAFSRKIMGYELSNEMKATDVVKALEMT
ISNRQYQHRAVHHSDRGLQYCSAVYQLALQRSDIRASMTDGYDCYQNALAERINGILKQEFLLSPCCNLNELKQLVEESIFIYNELRPHLSLGMKTPNQV
HKKDQQQKLLV
LNEAVDIIDAEYGAGLRKKVLSQGARSLQKQKVTSLNRACKLLGITRQAIYQRERRANCRAMELAPVRAMILDIRRFMPRIGGKKLYFLLKPKFIEKGIK
LGRDNFFSYLKSEGLLVKPKRNYTKTTNSKHWMKKHPNLLKELVPTAPEEVFVSDITYVQSEQGIHYLSLVTDAFSRKIMGYELSNEMKATDVVKALEMT
ISNRQYQHRAVHHSDRGLQYCSAVYQLALQRSDIRASMTDGYDCYQNALAERINGILKQEFLLSPCCNLNELKQLVEESIFIYNELRPHLSLGMKTPNQV
HKKDQQQKLLV
Blast result :
Comments
There are 11 copies of ISSsp1 encoded in the Shewanella pealena genome.
The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
The transposase encoded by ISSpe1 has 89% identity to that encoded by ISShwo1.
The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
The transposase encoded by ISSpe1 has 89% identity to that encoded by ISShwo1.
References
1] Romine, M.F. (2008) Direct submission.