ISBam1
- Family IS3
- Group IS150
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NZ_AAUZ01000004 | ND | Burkholderia ambifaria | Burkholderia ambifaria MC40-6 |
DNA section
IS Length : 1448 bp
Ends
IR Length : 23/32
IRL : TGAACTGCACCCCAAAAGTTGGACATCGATCCAACCTTTGGGGTGTTTTT
IRR : TGAACTGACCCCGTAAAGTTGGACGGGTTATGACGGCTAGGGCTGAGAGA
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GCCCCGCACG | ATA | CGTGCGGGGC | 3 |
DNA sequence
TGAACTGCACCCCAAAAGTTGGACATCGATCCAACCTTTGGGGTGTTTTTCATGAGCAAGTACACGGAGCAGTTCAAGGTATCCATTGCAGAGGAGTACG
AGTCCGGCCACGCTGGGTTCCGTGAGATGTCCAAGCGCCACGGCGTCGATGAGGCGACGATCCGCAAGTGGGTGGCGGCCCATCGCATACATGGTCCGGC
AGGCTTGAAGAAGAAGTGCGAGCGCTACAGCGCAGAGTTCAAGTTGCTTGTACTGCAGCAAATGCGTAGCGAGGGGTTGTCAGCGCGTGAGACGGCTGCA
CGCTTCAACATTAGGAACCGTACGGCCATCGGCCAGTGGAAACGCCAGTATGATGAAGGCGGTATAGACGCACTGTCGCCGCGCCAGCGGGGGCGCCCCA
GAAAGATGCCCAAGCCACCGATCACGCCACCGCCGCTACCCGAGGACGATACGCGCTCCCGACAGGAACTACTCGACGAGTTGAACTTCCTGCGCATGGA
GAACGCGTACCTAAAAAAGCTCGAAGCCTTGGCTCAAGCGCAGCAGCGATCAGCGCAACGCAAAAAGCGCAAATCGTGCTCGAGCTAAGGCAGCAATATC
CGCTTGCGGGCTTGTTGAAGGTTGCCGGCTTGGCGCGCAGCACGTTCTACTATCATCAGAAATTGTTCGGAGCAGCCGACAAGTATGCCGATACAACGGC
GAGAATCTGCTCGCTGTTCGAACGGCACAATGGCCGCTACGGCTATCGACGCATCACGCTCGCTCTACGTAATCTGGGACAGGTGATTAACCACAAGACT
GTGGCGCGTCTGATGGGCGAGTTGCGGCTGAAGTCTTGTGTGCGCCCGAAGAAATACCGCTCCTACAAAGGTAGCGTCGGACGTGTTGCACCTCATGTTT
TACAGCGTCGGTTCTACGCAAAGCGTCCGAACGAGAAGTGGGTAACGGATGTCACGGAATTCAACGTGGGCGGCCAGAAGCTGTACCTGTCACCAGTGCT
CGATCTGTACAACGGCGAGATCATTGCTTATGAAACCGCGAGGCGCCCGGCGTTCGAGATGGTCAGCGCAATGCTTCGCAAGGCATTGGCGCGCTTGAAG
TCACACGAGCGGCCTCTCTTGCATTCGGATCAGGGCTGGCAGTACCAGATGCCAGCGTATCGCCGCCTACTGCAGCAACGAGCGCTCACGCAAAGCATGT
CGCGTAAAGGGAATTGCCTGGACAACGCCGCCATGGAGAGCTTCTTCGGCACGCTGAAATCCGAGTTCTTCCATCTGAATCGGTTCCGCAACCTGGACGA
ACTGCAATCCGGCTTGGCAAGCTACATCCACTACTACAATCACGACCGCATCAAACTGAAACTAAAAGGGCTGAGTCCCGTGCAATACAGAACTCAGCTC
TCTCAGCCCTAGCCGTCATAACCCGTCCAACTTTACGGGGTCAGTTCA
AGTCCGGCCACGCTGGGTTCCGTGAGATGTCCAAGCGCCACGGCGTCGATGAGGCGACGATCCGCAAGTGGGTGGCGGCCCATCGCATACATGGTCCGGC
AGGCTTGAAGAAGAAGTGCGAGCGCTACAGCGCAGAGTTCAAGTTGCTTGTACTGCAGCAAATGCGTAGCGAGGGGTTGTCAGCGCGTGAGACGGCTGCA
CGCTTCAACATTAGGAACCGTACGGCCATCGGCCAGTGGAAACGCCAGTATGATGAAGGCGGTATAGACGCACTGTCGCCGCGCCAGCGGGGGCGCCCCA
GAAAGATGCCCAAGCCACCGATCACGCCACCGCCGCTACCCGAGGACGATACGCGCTCCCGACAGGAACTACTCGACGAGTTGAACTTCCTGCGCATGGA
GAACGCGTACCTAAAAAAGCTCGAAGCCTTGGCTCAAGCGCAGCAGCGATCAGCGCAACGCAAAAAGCGCAAATCGTGCTCGAGCTAAGGCAGCAATATC
CGCTTGCGGGCTTGTTGAAGGTTGCCGGCTTGGCGCGCAGCACGTTCTACTATCATCAGAAATTGTTCGGAGCAGCCGACAAGTATGCCGATACAACGGC
GAGAATCTGCTCGCTGTTCGAACGGCACAATGGCCGCTACGGCTATCGACGCATCACGCTCGCTCTACGTAATCTGGGACAGGTGATTAACCACAAGACT
GTGGCGCGTCTGATGGGCGAGTTGCGGCTGAAGTCTTGTGTGCGCCCGAAGAAATACCGCTCCTACAAAGGTAGCGTCGGACGTGTTGCACCTCATGTTT
TACAGCGTCGGTTCTACGCAAAGCGTCCGAACGAGAAGTGGGTAACGGATGTCACGGAATTCAACGTGGGCGGCCAGAAGCTGTACCTGTCACCAGTGCT
CGATCTGTACAACGGCGAGATCATTGCTTATGAAACCGCGAGGCGCCCGGCGTTCGAGATGGTCAGCGCAATGCTTCGCAAGGCATTGGCGCGCTTGAAG
TCACACGAGCGGCCTCTCTTGCATTCGGATCAGGGCTGGCAGTACCAGATGCCAGCGTATCGCCGCCTACTGCAGCAACGAGCGCTCACGCAAAGCATGT
CGCGTAAAGGGAATTGCCTGGACAACGCCGCCATGGAGAGCTTCTTCGGCACGCTGAAATCCGAGTTCTTCCATCTGAATCGGTTCCGCAACCTGGACGA
ACTGCAATCCGGCTTGGCAAGCTACATCCACTACTACAATCACGACCGCATCAAACTGAAACTAAAAGGGCTGAGTCCCGTGCAATACAGAACTCAGCTC
TCTCAGCCCTAGCCGTCATAACCCGTCCAACTTTACGGGGTCAGTTCA
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 | |
|---|---|---|---|---|---|
| 537 bp | 178 aa | 52 | 588 | + | No |
Description : First part of the transposase
ORF sequence :
MSKYTEQFKVSIAEEYESGHAGFREMSKRHGVDEATIRKWVAAHRIHGPAGLKKKCERYSAEFKLLVLQQMRSEGLSARETAARFNIRNRTAIGQWKRQY
DEGGIDALSPRQRGRPRKMPKPPITPPPLPEDDTRSRQELLDELNFLRMENAYLKKLEALAQAQQRSAQRKKRKSCSS
DEGGIDALSPRQRGRPRKMPKPPITPPPLPEDDTRSRQELLDELNFLRMENAYLKKLEALAQAQQRSAQRKKRKSCSS
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1056 bp | 351 aa | 357 | 1412 | + | No |
Description : Second part of the transposase
ORF sequence :
RRYRRTVAAPAGAPQKDAQATDHATAATRGRYALPTGTTRRVELPAHGERVPKKARSLGSSAAISATQKAQIVLELRQQYPLAGLLKVAGLARSTFYYHQ
KLFGAADKYADTTARICSLFERHNGRYGYRRITLALRNLGQVINHKTVARLMGELRLKSCVRPKKYRSYKGSVGRVAPHVLQRRFYAKRPNEKWVTDVTE
FNVGGQKLYLSPVLDLYNGEIIAYETARRPAFEMVSAMLRKALARLKSHERPLLHSDQGWQYQMPAYRRLLQQRALTQSMSRKGNCLDNAAMESFFGTLK
SEFFHLNRFRNLDELQSGLASYIHYYNHDRIKLKLKGLSPVQYRTQLSQP
KLFGAADKYADTTARICSLFERHNGRYGYRRITLALRNLGQVINHKTVARLMGELRLKSCVRPKKYRSYKGSVGRVAPHVLQRRFYAKRPNEKWVTDVTE
FNVGGQKLYLSPVLDLYNGEIIAYETARRPAFEMVSAMLRKALARLKSHERPLLHSDQGWQYQMPAYRRLLQQRALTQSMSRKGNCLDNAAMESFFGTLK
SEFFHLNRFRNLDELQSGLASYIHYYNHDRIKLKLKGLSPVQYRTQLSQP
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1361 bp | 452 aa | 52 | 1412 | + | Yes |
Chemistry : DDE
ORF sequence :
MSKYTEQFKVSIAEEYESGHAGFREMSKRHGVDEATIRKWVAAHRIHGPAGLKKKCERYSAEFKLLVLQQMRSEGLSARETAARFNIRNRTAIGQWKRQY
DEGGIDALSPRQRGRPRKMPKPPITPPPLPEDDTRSRQELLDELNFLRMENAYLKKARSLGSSAAISATQKAQIVLELRQQYPLAGLLKVAGLARSTFYY
HQKLFGAADKYADTTARICSLFERHNGRYGYRRITLALRNLGQVINHKTVARLMGELRLKSCVRPKKYRSYKGSVGRVAPHVLQRRFYAKRPNEKWVTDV
TEFNVGGQKLYLSPVLDLYNGEIIAYETARRPAFEMVSAMLRKALARLKSHERPLLHSDQGWQYQMPAYRRLLQQRALTQSMSRKGNCLDNAAMESFFGT
LKSEFFHLNRFRNLDELQSGLASYIHYYNHDRIKLKLKGLSPVQYRTQLSQP
DEGGIDALSPRQRGRPRKMPKPPITPPPLPEDDTRSRQELLDELNFLRMENAYLKKARSLGSSAAISATQKAQIVLELRQQYPLAGLLKVAGLARSTFYY
HQKLFGAADKYADTTARICSLFERHNGRYGYRRITLALRNLGQVINHKTVARLMGELRLKSCVRPKKYRSYKGSVGRVAPHVLQRRFYAKRPNEKWVTDV
TEFNVGGQKLYLSPVLDLYNGEIIAYETARRPAFEMVSAMLRKALARLKSHERPLLHSDQGWQYQMPAYRRLLQQRALTQSMSRKGNCLDNAAMESFFGT
LKSEFFHLNRFRNLDELQSGLASYIHYYNHDRIKLKLKGLSPVQYRTQLSQP
Blast result :
Comments
ISBam1 is 72% (ORFA)aa similar to ISPsy9 and 57% (ORFB) aa similar to ISBcen9. The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Pitluck,S. and Richardson,P. (2006) Direct submission GenBank.