ISShsp3
- Family IS3
- Group IS3
Isoform Synonym(s) ISSsp1
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_008308 | ND | Sphingomonas sp. | Sphingomonas sp. KA1 |
DNA section
IS Length : 1229 bp
Ends
IR Length : 37/49
IRL : TGGACTTGTAACGGTTTTGTGCCGGTCACTTGAGAGTTTAAGGCTCGTTC
IRR : TGGACTTGTAACGGTTTTGCGCCGGTCCCCTATCTCATTATGCCACCTTG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| ATGGTGATCA | CCA | TTCTGGGCAT | 3 |
DNA sequence
TGGACTTGTAACGGTTTTGTGCCGGTCACTTGAGAGTTTAAGGCTCGTTCAAGGAGACCGACGAGATGATGAAGCATAGTGAAGAGTTCAAGCAGGAGGC
TGTGCGCATTGCGCTGACCAGCGGGTTGTCGCGCGGACGCGTCGCGTCAGATTTGGGTGTCGGCAAGTCGACGCTGAACAAATGGGTTTCGCATTATCGT
CCATCGGACCTGGTGGCAGCGCCGCAGGCAGATCTGGCACGAGAGAATGAACGGCTTCGCCTTGAGAACCGCGTGCTTCGGGAGGAGAGGGAAATCCTAA
AAAAGGCGACTCAGTTCTTCGCGAGCCAAAGGCCGTGAGGTTCGCCTTTGTGCACAGCTGGCGGCATCGGTGGCCGGTGGAGCTGATGTGCCGTGTCCTT
CAGGTGAGCGAGCGCGGTTATCGTTCCTGGCGCTCGCGTCCAGTAAGTCATCGGGAGCGGACAGACATGAGGGTGCTGGCCCATATTCGGGAACAATATA
GCCTGAGCCTTGGCAGCTACGGTCGTCCGAGGATGACGATGGAACTCAAGGAGGCGGGCCTTGATGTTGGTGAGCGTCGGGTCGGCCGCCTCATGCGGAT
CAACGGGATCAAGCCGGTCCGCACACGCAAACACAAGGTGACGACGGACAGCCACCATCGCCTGGGTGTCGCAGCGAACTGGTTGGATGGCGACTTTGCC
GCCGATGCGCCAAATTGCAAATGGGCTGGCGACATCACCTATGTCTGGACATCGGAAGGCTGGCTCTACCTTGCCGTCATCCTCGACCTGCACAGCCGCC
GTGTCGTTGGCTGGGCTGTCAGCGATAGGATGAAGAAGGATCTGGCCATCCGGGCATTGGATATGGCGGTGCGCCTGCGCAATCCGCCGCATGGCTGCAT
TTTTCATTCCGATCGCGGCAGCCAATATTGCTCCTATGACTACCAAAAGAAGCTGCAGGCCTACGGCCTGCGTCCATCCATGAGCGGCAAAGGCAATTGT
TACGACAACTCCGCCGTCGAGACATTCTTCAAATCCCTGAAGGCGGAAATGATCTGGCGGCAGAGCTGGCCAACCCGGCGGCAAGCAGAGGCCGCCATCT
TTCAGTACATCAATGGCTTCTACAACTCACGGCGGCGCCATTCATATCTGGGCGGGATCAGCCCACTCGCCTTTGAGGCCAAGGTGGCATAATGAGATAG
GGGACCGGCGCAAAACCGTTACAAGTCCA
TGTGCGCATTGCGCTGACCAGCGGGTTGTCGCGCGGACGCGTCGCGTCAGATTTGGGTGTCGGCAAGTCGACGCTGAACAAATGGGTTTCGCATTATCGT
CCATCGGACCTGGTGGCAGCGCCGCAGGCAGATCTGGCACGAGAGAATGAACGGCTTCGCCTTGAGAACCGCGTGCTTCGGGAGGAGAGGGAAATCCTAA
AAAAGGCGACTCAGTTCTTCGCGAGCCAAAGGCCGTGAGGTTCGCCTTTGTGCACAGCTGGCGGCATCGGTGGCCGGTGGAGCTGATGTGCCGTGTCCTT
CAGGTGAGCGAGCGCGGTTATCGTTCCTGGCGCTCGCGTCCAGTAAGTCATCGGGAGCGGACAGACATGAGGGTGCTGGCCCATATTCGGGAACAATATA
GCCTGAGCCTTGGCAGCTACGGTCGTCCGAGGATGACGATGGAACTCAAGGAGGCGGGCCTTGATGTTGGTGAGCGTCGGGTCGGCCGCCTCATGCGGAT
CAACGGGATCAAGCCGGTCCGCACACGCAAACACAAGGTGACGACGGACAGCCACCATCGCCTGGGTGTCGCAGCGAACTGGTTGGATGGCGACTTTGCC
GCCGATGCGCCAAATTGCAAATGGGCTGGCGACATCACCTATGTCTGGACATCGGAAGGCTGGCTCTACCTTGCCGTCATCCTCGACCTGCACAGCCGCC
GTGTCGTTGGCTGGGCTGTCAGCGATAGGATGAAGAAGGATCTGGCCATCCGGGCATTGGATATGGCGGTGCGCCTGCGCAATCCGCCGCATGGCTGCAT
TTTTCATTCCGATCGCGGCAGCCAATATTGCTCCTATGACTACCAAAAGAAGCTGCAGGCCTACGGCCTGCGTCCATCCATGAGCGGCAAAGGCAATTGT
TACGACAACTCCGCCGTCGAGACATTCTTCAAATCCCTGAAGGCGGAAATGATCTGGCGGCAGAGCTGGCCAACCCGGCGGCAAGCAGAGGCCGCCATCT
TTCAGTACATCAATGGCTTCTACAACTCACGGCGGCGCCATTCATATCTGGGCGGGATCAGCCCACTCGCCTTTGAGGCCAAGGTGGCATAATGAGATAG
GGGACCGGCGCAAAACCGTTACAAGTCCA
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 | |
|---|---|---|---|---|---|
| 234 bp | 78 aa | 104 | 337 | + | No |
Description : First part of the transposase
ORF sequence :
MRIALTSGLSRGRVASDLGVGKSTLNKWVSHYRPSDLVAAPQADLARENERLRLENRVLREEREILKKATQFFASQRP
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 927 bp | 308 aa | 265 | 1191 | + | No |
Description : Second part of the transposase
ORF sequence :
EPRASGGEGNPKKGDSVLREPKAVRFAFVHSWRHRWPVELMCRVLQVSERGYRSWRSRPVSHRERTDMRVLAHIREQYSLSLGSYGRPRMTMELKEAGLD
VGERRVGRLMRINGIKPVRTRKHKVTTDSHHRLGVAANWLDGDFAADAPNCKWAGDITYVWTSEGWLYLAVILDLHSRRVVGWAVSDRMKKDLAIRALDM
AVRLRNPPHGCIFHSDRGSQYCSYDYQKKLQAYGLRPSMSGKGNCYDNSAVETFFKSLKAEMIWRQSWPTRRQAEAAIFQYINGFYNSRRRHSYLGGISP
LAFEAKVA
VGERRVGRLMRINGIKPVRTRKHKVTTDSHHRLGVAANWLDGDFAADAPNCKWAGDITYVWTSEGWLYLAVILDLHSRRVVGWAVSDRMKKDLAIRALDM
AVRLRNPPHGCIFHSDRGSQYCSYDYQKKLQAYGLRPSMSGKGNCYDNSAVETFFKSLKAEMIWRQSWPTRRQAEAAIFQYINGFYNSRRRHSYLGGISP
LAFEAKVA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1088 bp | 363 aa | 104 | 1191 | + | Yes |
Chemistry : DDE
ORF sequence :
MRIALTSGLSRGRVASDLGVGKSTLNKWVSHYRPSDLVAAPQADLARENERLRLENRVLREEREILKKGDSVLREPKAVRFAFVHSWRHRWPVELMCRVL
QVSERGYRSWRSRPVSHRERTDMRVLAHIREQYSLSLGSYGRPRMTMELKEAGLDVGERRVGRLMRINGIKPVRTRKHKVTTDSHHRLGVAANWLDGDFA
ADAPNCKWAGDITYVWTSEGWLYLAVILDLHSRRVVGWAVSDRMKKDLAIRALDMAVRLRNPPHGCIFHSDRGSQYCSYDYQKKLQAYGLRPSMSGKGNC
YDNSAVETFFKSLKAEMIWRQSWPTRRQAEAAIFQYINGFYNSRRRHSYLGGISPLAFEAKVA
QVSERGYRSWRSRPVSHRERTDMRVLAHIREQYSLSLGSYGRPRMTMELKEAGLDVGERRVGRLMRINGIKPVRTRKHKVTTDSHHRLGVAANWLDGDFA
ADAPNCKWAGDITYVWTSEGWLYLAVILDLHSRRVVGWAVSDRMKKDLAIRALDMAVRLRNPPHGCIFHSDRGSQYCSYDYQKKLQAYGLRPSMSGKGNC
YDNSAVETFFKSLKAEMIWRQSWPTRRQAEAAIFQYINGFYNSRRRHSYLGGISPLAFEAKVA
Blast result :
Comments
ISShsp3 is 72% (ORFA) and 78% (ORFB) aa similar to IS1133. The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
References
1] Urata,M., Uchimura,H., Noguchi,H., Sakaguchi,T., Takemura,T., Eto,K., Habe,H., Omori,T., Yamane,H. and Nojiri,H. (2006) Appl. Environ. Microbiol. 72 (5), 3198-3205.