ISBlo9
- Family IS3
- Group IS150
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_004307 | ND | Bifidobacterium longum | Bifidobacterium longum NCC2705 |
DNA section
IS Length : 1220 bp
Ends
IR Length : 28/43
IRL : TGGATTGGCTACAATGTATTAGACAGTCCGATGAGGGACGAATGACATGA
IRR : TGGATTGGCAACGGCGTGTTGGACAGGTTCTTAGAGGACGAGTCCTTGTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|
DNA sequence
TGGATTGGCTACAATGTATTAGACAGTCCGATGAGGGACGAATGACATGAGATTGGAGGCCGACGATGGCCGACCCGAAGCATCCCCGCCACTACGAGGA
GTCGTTCAAGCGGCAGATCGTGCAGCTTTACGAGAACGGCAAGCCGGCGCGCGAGATCAAGGACGAGTACGACATCTCGCATTCCACGCTGCACCGTTGG
GTCCAGGGCATCCGCAACAGCGGCTCCACGAAAGCCGCCGACAACCGCACCCCTGAGCAGAACGAGCTGATCGAGCTGCGCAAGCGCAACAGACAGTTGG
AGATGGAGGTGGACGTTTCAGAACAGGCGGCGCTGATATTCGCACGAAAGTAGCAGTGATACGGGCCAACGCCTCCCGTTATCCGATATCGGCGCAGTGC
AGAATACTGGGCGTTCCCCGCTCCACCTACTACTGGATGATCGAACATCCCGAAGCAGGGCGGGTGGACCCGATCGCCGGCGACGTGCACGCGATCTGGC
GCGACAGCCATGAGCGTTACGGCGCCAGGAAGATCAAGGCCGCGCTGGAGCGGAGGGGCGTCACCGCCTCCAGAAGGCGCATCGTCAACATCATGAAACG
GCGGGGCATGACGAGCGCGTACGCGCGCAGAACGTTCAAACCACACAAGACGCGGGTTAACGAGGCCAGGCTCGCGAACATCCTCGACCGCGAGTTCGAC
GGCTACGAGCCGCGCACCCACCTGGCCAGTGACCTGACGTACGTGCGTGTCGGCGGCAAGTGGGTGTACGCGTGCCTGCTCATCGACCTGACGAACAGGA
GCATCAGCATCGCCGGCCACGGCGCCGACACGGGCCGCACCGCCGACCTGGTCATGGCCGCGTTCGCCACACTCGACTTCCCCCTGACCGAGGTGGAGGT
GTTCCACACGGACCAGGGCGGCGGGTTCGACAACGCGAAGATCGACGGGCTGCTCGACGTGTTCGACATCAGAAGATCGCCGTCGCGCAAGGGCGACCCC
GTACGACAACGCCGTGGTCGAATCCACCAACAGGCTCCTGAAGAAGGAGCTCATATACCGGAACCACTGCACCAGCCTGGAACAACTACGCTCCGACCTC
AACGATTATGTGTGGTGGTCCGACAACCAAAGACCCCGCTCCACCCTCGGATACCGGAGCCCCAACGAATTCACACAACAAGGACTCGTCCTCTAAGAAC
CTGTCCAACACGCCGTTGCCAATCCA
GTCGTTCAAGCGGCAGATCGTGCAGCTTTACGAGAACGGCAAGCCGGCGCGCGAGATCAAGGACGAGTACGACATCTCGCATTCCACGCTGCACCGTTGG
GTCCAGGGCATCCGCAACAGCGGCTCCACGAAAGCCGCCGACAACCGCACCCCTGAGCAGAACGAGCTGATCGAGCTGCGCAAGCGCAACAGACAGTTGG
AGATGGAGGTGGACGTTTCAGAACAGGCGGCGCTGATATTCGCACGAAAGTAGCAGTGATACGGGCCAACGCCTCCCGTTATCCGATATCGGCGCAGTGC
AGAATACTGGGCGTTCCCCGCTCCACCTACTACTGGATGATCGAACATCCCGAAGCAGGGCGGGTGGACCCGATCGCCGGCGACGTGCACGCGATCTGGC
GCGACAGCCATGAGCGTTACGGCGCCAGGAAGATCAAGGCCGCGCTGGAGCGGAGGGGCGTCACCGCCTCCAGAAGGCGCATCGTCAACATCATGAAACG
GCGGGGCATGACGAGCGCGTACGCGCGCAGAACGTTCAAACCACACAAGACGCGGGTTAACGAGGCCAGGCTCGCGAACATCCTCGACCGCGAGTTCGAC
GGCTACGAGCCGCGCACCCACCTGGCCAGTGACCTGACGTACGTGCGTGTCGGCGGCAAGTGGGTGTACGCGTGCCTGCTCATCGACCTGACGAACAGGA
GCATCAGCATCGCCGGCCACGGCGCCGACACGGGCCGCACCGCCGACCTGGTCATGGCCGCGTTCGCCACACTCGACTTCCCCCTGACCGAGGTGGAGGT
GTTCCACACGGACCAGGGCGGCGGGTTCGACAACGCGAAGATCGACGGGCTGCTCGACGTGTTCGACATCAGAAGATCGCCGTCGCGCAAGGGCGACCCC
GTACGACAACGCCGTGGTCGAATCCACCAACAGGCTCCTGAAGAAGGAGCTCATATACCGGAACCACTGCACCAGCCTGGAACAACTACGCTCCGACCTC
AACGATTATGTGTGGTGGTCCGACAACCAAAGACCCCGCTCCACCCTCGGATACCGGAGCCCCAACGAATTCACACAACAAGGACTCGTCCTCTAAGAAC
CTGTCCAACACGCCGTTGCCAATCCA
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 | |
|---|---|---|---|---|---|
| 288 bp | 95 aa | 66 | 353 | + | No |
Description : First part of the transposase
ORF sequence :
MADPKHPRHYEESFKRQIVQLYENGKPAREIKDEYDISHSTLHRWVQGIRNSGSTKAADNRTPEQNELIELRKRNRQLEMEVDVSEQAALIFARK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 964 bp | 323 aa | 257 | 1220 | + | No |
Description : Second part of the transposase
ORF sequence :
AERADRAAQAQQTVGDGGGRFRTGGADIRTKVAVIRANASRYPISAQCRILGVPRSTYYWMIEHPEAGRVDPIAGDVHAIWRDSHERYGARKIKAALERR
GVTASRRRIVNIMKRRGMTSAYARRTFKPHKTRVNEARLANILDREFDGYEPRTHLASDLTYVRVGGKWVYACLLIDLTNRSISIAGHGADTGRTADLVM
AAFATLDFPLTEVEVFHTDQGGGFDNAKIDGLLDVFDIRRSPSRKGDPVRQRRGRIHQQAPEEGAHIPEPLHQPGTTTLRPQRLCVVVRQPKTPLHPRIP
EPQRIHTTRTRPLRTCPTRRCQS
GVTASRRRIVNIMKRRGMTSAYARRTFKPHKTRVNEARLANILDREFDGYEPRTHLASDLTYVRVGGKWVYACLLIDLTNRSISIAGHGADTGRTADLVM
AAFATLDFPLTEVEVFHTDQGGGFDNAKIDGLLDVFDIRRSPSRKGDPVRQRRGRIHQQAPEEGAHIPEPLHQPGTTTLRPQRLCVVVRQPKTPLHPRIP
EPQRIHTTRTRPLRTCPTRRCQS
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1155 bp | 387 aa | 66 | 1220 | + | Yes |
Chemistry : DDE
ORF sequence :
MADPKHPRHYEESFKRQIVQLYENGKPAREIKDEYDISHSTLHRWVQGIRNSGSTKAADNRTPEQNELIELRKRNRQLEMEVDVSEQAALIFARKVAVIR
ANASRYPISAQCRILGVPRSTYYWMIEHPEAGRVDPIAGDVHAIWRDSHERYGARKIKAALERRGVTASRRRIVNIMKRRGMTSAYARRTFKPHKTRVNE
ARLANILDREFDGYEPRTHLASDLTYVRVGGKWVYACLLIDLTNRSISIAGHGADTGRTADLVMAAFATLDFPLTEVEVFHTDQGGGFDNAKIDGLLDVF
DIRRSPSRKGDPVRQRRGRIHQQAPEEGAHIPEPLHQPGTTTLRPQRLCVVVRQPKTPLHPRIPEPQRIHTTRTRPLRTCPTRRCQS
ANASRYPISAQCRILGVPRSTYYWMIEHPEAGRVDPIAGDVHAIWRDSHERYGARKIKAALERRGVTASRRRIVNIMKRRGMTSAYARRTFKPHKTRVNE
ARLANILDREFDGYEPRTHLASDLTYVRVGGKWVYACLLIDLTNRSISIAGHGADTGRTADLVMAAFATLDFPLTEVEVFHTDQGGGFDNAKIDGLLDVF
DIRRSPSRKGDPVRQRRGRIHQQAPEEGAHIPEPLHQPGTTTLRPQRLCVVVRQPKTPLHPRIPEPQRIHTTRTRPLRTCPTRRCQS
Blast result :
Comments
As no intact copy of ISBlo9 is found in the genome of NCC2705, an in silico reconstruction is proposed. One copy of ISBlo9 is truncated by the insertion of ISBlo1d, the other is only a remnant of 158 bp (91.9% identity). The second ORF has no stop codon. An alignement with the transposase of IS1485 revealed a probable frameshift (350-991)join(993-1190) (PEP3).
Coordinates:
ISBlo9a (complement(299932..300736))join(complement(1522006..1522426))
ISBlo9b 776486..776643
Coordinates:
ISBlo9a (complement(299932..300736))join(complement(1522006..1522426))
ISBlo9b 776486..776643
References
1] Schell,M.A., Karmirantzou,M., Snel,B., Vilanova,D., Berger,B., Pessi,G., Zwahlen,M.-C., Desiere,F., Bork,P., Delley,M., Pridmore,D. and Arigoni,F. (2002) Proc. Natl. Acad. Sci. U.S.A. 99 (22), 14422-14427