ISSham2
- Family IS3
- Group IS51
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_008700 | ND | Shewanella amazonensis | Shewanella amazonensis |
DNA section
IS Length : 1230 bp
Ends
IR Length : 25/33
IRL : TGAATCGCCACTGATTTCCTAGACACCTTTGAGTTAGATAGACTAGCGAA
IRR : GGAATCGCCACTACTTCACTAGACGACTTTTAGCCTCATTAAAATACTTA
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TACAACGTTA | CCCCCTCAAG | 0 |
DNA sequence
TGAATCGCCACTGATTTCCTAGACACCTTTGAGTTAGATAGACTAGCGAAAAAAGAGGTGTCCATGAGCCATAAACGTTACCCCGAACAATTCAAAATCG
AAGCAGTTAAACAAGTCACTGTTGCCGGCCATTCTGTTGCTGACGTTGCTCAGCGTTTAGGTACTACCACCCACAGTCTTTATGCCTGGATTAAGCGCTA
TGGCCCTGATTCTGAGGAACACCTTCAGCAGTCTGCTGAGTCCGCCGAAATTCGACGACTACAAAAAGAGCTTAAGCGCGTTACTGAAGAACGTGACCTG
TTAAAAAAAGCCGCGGCGTACTTCGCAAGCCACCCCGAGTAAGATACGCCTTTATCCAAGAGCATCATCACAGCCACTCTGTGCGGCAACTGTGTCAGCT
GTTTGATGTTCATCCGAGCGGGTATTACGCGTGGAGAAGTTGCGCCAAGTCGAAGCGACAACGCGATAATGAACGACTTACAGGCCAACTCAAACAATGT
TGGCTTGAGTCTGGTGGCGTCTATGGATATCGCAAACTCCATCGAGATCTACGTGATCTTGGTGAGCAATGCGGTATTAATCGCGTATATCGCCTGATGC
AGCGAGCAGGATTGCGAGCACAAGTTGGTTATCGCAAGCCTAGAGCTCGTAGTGGTGAGCCGCATGTTGTAACGCCAAATCGTTTAGAACGGCAATTTAA
CCCCTTAGCGCCAAACCAAGCGTGGGTGACGGATATTACGTACATCAAAACGCATGAAGGTTGGCTCTATCTTGGCGCAGTGATGGACTTGTTCTCACGT
CACATTATTGGTTGGTCAATGGGCAGTCGAATCACCAAAGAACTTGCGTTAGATGCCTTATTGATGGCGGTTTGGCGTCGTAAACCTGATGGAAATGTCC
TGGTTCACTCAGATCAAGGAAGCCAATACACGAGCCATGATTGGAATGAATTTCTAAGCGCTCATGGTTTGGAAGGTAGCATGAGCCGTCGGGGCAACTG
CCATGATAACGCAGTAGCGGAGAGTTTCTTTCAACTGCTGAAACGTGAACGAATTAGGCGAAAAATCTATGCGACTAGGAACGAGGCAAAGATGGATGTG
TTTAATTATATTGAGATGTTTTACAACCCGAAACGACAGCATAGTTCCAATGATGGGCTATCACCGTTAGAGTATGAGCGTAAGTATTTTAATGAGGCTA
AAAGTCGTCTAGTGAAGTAGTGGCGATTCC
AAGCAGTTAAACAAGTCACTGTTGCCGGCCATTCTGTTGCTGACGTTGCTCAGCGTTTAGGTACTACCACCCACAGTCTTTATGCCTGGATTAAGCGCTA
TGGCCCTGATTCTGAGGAACACCTTCAGCAGTCTGCTGAGTCCGCCGAAATTCGACGACTACAAAAAGAGCTTAAGCGCGTTACTGAAGAACGTGACCTG
TTAAAAAAAGCCGCGGCGTACTTCGCAAGCCACCCCGAGTAAGATACGCCTTTATCCAAGAGCATCATCACAGCCACTCTGTGCGGCAACTGTGTCAGCT
GTTTGATGTTCATCCGAGCGGGTATTACGCGTGGAGAAGTTGCGCCAAGTCGAAGCGACAACGCGATAATGAACGACTTACAGGCCAACTCAAACAATGT
TGGCTTGAGTCTGGTGGCGTCTATGGATATCGCAAACTCCATCGAGATCTACGTGATCTTGGTGAGCAATGCGGTATTAATCGCGTATATCGCCTGATGC
AGCGAGCAGGATTGCGAGCACAAGTTGGTTATCGCAAGCCTAGAGCTCGTAGTGGTGAGCCGCATGTTGTAACGCCAAATCGTTTAGAACGGCAATTTAA
CCCCTTAGCGCCAAACCAAGCGTGGGTGACGGATATTACGTACATCAAAACGCATGAAGGTTGGCTCTATCTTGGCGCAGTGATGGACTTGTTCTCACGT
CACATTATTGGTTGGTCAATGGGCAGTCGAATCACCAAAGAACTTGCGTTAGATGCCTTATTGATGGCGGTTTGGCGTCGTAAACCTGATGGAAATGTCC
TGGTTCACTCAGATCAAGGAAGCCAATACACGAGCCATGATTGGAATGAATTTCTAAGCGCTCATGGTTTGGAAGGTAGCATGAGCCGTCGGGGCAACTG
CCATGATAACGCAGTAGCGGAGAGTTTCTTTCAACTGCTGAAACGTGAACGAATTAGGCGAAAAATCTATGCGACTAGGAACGAGGCAAAGATGGATGTG
TTTAATTATATTGAGATGTTTTACAACCCGAAACGACAGCATAGTTCCAATGATGGGCTATCACCGTTAGAGTATGAGCGTAAGTATTTTAATGAGGCTA
AAAGTCGTCTAGTGAAGTAGTGGCGATTCC
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 | |
|---|---|---|---|---|---|
| 279 bp | 92 aa | 64 | 342 | + | No |
Description : First part of the transposase
ORF sequence :
MSHKRYPEQFKIEAVKQVTVAGHSVADVAQRLGTTTHSLYAWIKRYGPDSEEHLQQSAESAEIRRLQKELKRVTEERDLLKKAAAYFASHPE
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 924 bp | 307 aa | 297 | 1220 | + | No |
Description : Second part of the transposase
ORF sequence :
PVKKSRGVLRKPPRVRYAFIQEHHHSHSVRQLCQLFDVHPSGYYAWRSCAKSKRQRDNERLTGQLKQCWLESGGVYGYRKLHRDLRDLGEQCGINRVYRL
MQRAGLRAQVGYRKPRARSGEPHVVTPNRLERQFNPLAPNQAWVTDITYIKTHEGWLYLGAVMDLFSRHIIGWSMGSRITKELALDALLMAVWRRKPDGN
VLVHSDQGSQYTSHDWNEFLSAHGLEGSMSRRGNCHDNAVAESFFQLLKRERIRRKIYATRNEAKMDVFNYIEMFYNPKRQHSSNDGLSPLEYERKYFNE
AKSRLVK
MQRAGLRAQVGYRKPRARSGEPHVVTPNRLERQFNPLAPNQAWVTDITYIKTHEGWLYLGAVMDLFSRHIIGWSMGSRITKELALDALLMAVWRRKPDGN
VLVHSDQGSQYTSHDWNEFLSAHGLEGSMSRRGNCHDNAVAESFFQLLKRERIRRKIYATRNEAKMDVFNYIEMFYNPKRQHSSNDGLSPLEYERKYFNE
AKSRLVK
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1157 bp | 385 aa | 64 | 1220 | + | Yes |
Chemistry : DDE
ORF sequence :
MSHKRYPEQFKIEAVKQVTVAGHSVADVAQRLGTTTHSLYAWIKRYGPDSEEHLQQSAESAEIRRLQKELKRVTEERDLLKKSRGVLRKPPRVRYAFIQE
HHHSHSVRQLCQLFDVHPSGYYAWRSCAKSKRQRDNERLTGQLKQCWLESGGVYGYRKLHRDLRDLGEQCGINRVYRLMQRAGLRAQVGYRKPRARSGEP
HVVTPNRLERQFNPLAPNQAWVTDITYIKTHEGWLYLGAVMDLFSRHIIGWSMGSRITKELALDALLMAVWRRKPDGNVLVHSDQGSQYTSHDWNEFLSA
HGLEGSMSRRGNCHDNAVAESFFQLLKRERIRRKIYATRNEAKMDVFNYIEMFYNPKRQHSSNDGLSPLEYERKYFNEAKSRLVK
HHHSHSVRQLCQLFDVHPSGYYAWRSCAKSKRQRDNERLTGQLKQCWLESGGVYGYRKLHRDLRDLGEQCGINRVYRLMQRAGLRAQVGYRKPRARSGEP
HVVTPNRLERQFNPLAPNQAWVTDITYIKTHEGWLYLGAVMDLFSRHIIGWSMGSRITKELALDALLMAVWRRKPDGNVLVHSDQGSQYTSHDWNEFLSA
HGLEGSMSRRGNCHDNAVAESFFQLLKRERIRRKIYATRNEAKMDVFNYIEMFYNPKRQHSSNDGLSPLEYERKYFNEAKSRLVK
Blast result :
Comments
There is one full length and one partial copy of ISSham2 encoded in the Shewanella amazonensis genome. The ISSham2 transposase is predicted to be activated by programmed frameshifting (orf3). The ISSham2 transposase (orf 3) has 93% identity with the ISSod17 (orf3) transposase.
References
1] Romine, M. (2008) Direct submission.