ISBlo6
- Family ISL3
- Group
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_004307 | ND | Bifidobacterium longum | Bifidobacterium longum NCC2705 |
DNA section
IS Length : 1330 bp
Ends
IR Length : 35/42
IRL : GGCCTTTCGCTGTTTGTGGTGGGTGACTGTGCCGTGGGGTGATGTTGGTC
IRR : GGCTATTCGCTGTTTGTGGTGGGTGATGGTCAAGTGGTGGTGACGGCTTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|
DNA sequence
GGCCTTTCGCTGTTTGTGGTGGGTGACTGTGCCGTGGGGTGATGTTGGTCGGGTAGGTTGGAGGCATGGATACCTCTTACCTGTTCACCGCCGCCCTGCA
GTTGCAGTCTCCTTGGAAGGTCGAGTCCGTGGATTTCAGGGATGCGGGGGACGGCAGGCAGGAGCTGCGCATCGCGATCGGTTTCGAGGCGGGCTCGCGC
TTCTGTTGTCCCGAGCCGGGGTGCGACGAGACCGTCTGCCCGGTGCATGACACCCGTGAGCGCACGTGGCGGCATCCGGACTTCTTCCGGTACAAGGCGT
TCATCCACGCCGGTGTGCCGCGGGTCTCCTGTCCCGTGCATGGGGTGATGCCGGTGCCCGCCCCGTGGGCCAGGCCCGGCAGCGGGTTCACGCTCCTGTT
CGAGGCGTGGGCCGTGGAGATGGCCCGCCACCTGCCCGTCAGCACGCTCGCCGAGCAATTGGACGAGACCGACACCCGTTTGTGGCGGTCCGTCGCCCAT
TACGTCGACGAGGCGAGGAGGCTGGAGGACTACATGGGTGTGGAGGCCATCGGCATCGACGAGACCAGCCGCAGGGGCCGCAATTGCATCACCGTGGTCG
CCGATCTCGTGGAGCACGATGTCATCAACGTGACGCCGGGCAAGGACCCGGCCACGGTCGAACGGTTCTCGCGTGATTTCATGGACCACAACGGGGTCCC
GGAATATGTGCGTCTGGTCGCCTGCGACATGAGCCTGGGCTTCCGGAAGGGCATCCGTGAGCATCTGCCCCATGCGCGGCGGATCGTCGACAGGTTCCAC
GTGGCCAGGCACGCCAACGAGGCCGTCGACAAGGCCGGGAAGACGGAAGGCCGCTCCAACCCGCTGCTCAAACGGACCAAGTACCTGTGGCTGCGCAACG
AGGAAAGCCTGACCGAACTGCAGGTGGAGACCAAGCGCAACCTGACGAGGCAACGGTTGAAGACCGGCCGCGCCTGCCGGATGCGCGAGGTCCTGCAGGA
CATCTACACGGACAGCCCCACCCCGTCCGAGGCATGGGTGCGCCTGCATCGCCTGTGCTCGTGGATGATGCACTCGAGGCTCGAGCCCATGAAGGACTTC
GCCCGCATGATCCGACGCCACTTCGCCGAGATCGTCGCCTACTTCGAGCACCCGTACACCAACGCCGTCCTCGAGGGCGCCGACAGCGTCATCCAGAACG
TCAAACGACGGGCCAGCGGCTTCCGTAACATGGACTACTTCGCCACCATGATCTACCTGACCTGCGGCAAACTCGACCTCAAAGCCGTCACCACCACTTG
ACCATCACCCACCACAAACAGCGAATAGCC
GTTGCAGTCTCCTTGGAAGGTCGAGTCCGTGGATTTCAGGGATGCGGGGGACGGCAGGCAGGAGCTGCGCATCGCGATCGGTTTCGAGGCGGGCTCGCGC
TTCTGTTGTCCCGAGCCGGGGTGCGACGAGACCGTCTGCCCGGTGCATGACACCCGTGAGCGCACGTGGCGGCATCCGGACTTCTTCCGGTACAAGGCGT
TCATCCACGCCGGTGTGCCGCGGGTCTCCTGTCCCGTGCATGGGGTGATGCCGGTGCCCGCCCCGTGGGCCAGGCCCGGCAGCGGGTTCACGCTCCTGTT
CGAGGCGTGGGCCGTGGAGATGGCCCGCCACCTGCCCGTCAGCACGCTCGCCGAGCAATTGGACGAGACCGACACCCGTTTGTGGCGGTCCGTCGCCCAT
TACGTCGACGAGGCGAGGAGGCTGGAGGACTACATGGGTGTGGAGGCCATCGGCATCGACGAGACCAGCCGCAGGGGCCGCAATTGCATCACCGTGGTCG
CCGATCTCGTGGAGCACGATGTCATCAACGTGACGCCGGGCAAGGACCCGGCCACGGTCGAACGGTTCTCGCGTGATTTCATGGACCACAACGGGGTCCC
GGAATATGTGCGTCTGGTCGCCTGCGACATGAGCCTGGGCTTCCGGAAGGGCATCCGTGAGCATCTGCCCCATGCGCGGCGGATCGTCGACAGGTTCCAC
GTGGCCAGGCACGCCAACGAGGCCGTCGACAAGGCCGGGAAGACGGAAGGCCGCTCCAACCCGCTGCTCAAACGGACCAAGTACCTGTGGCTGCGCAACG
AGGAAAGCCTGACCGAACTGCAGGTGGAGACCAAGCGCAACCTGACGAGGCAACGGTTGAAGACCGGCCGCGCCTGCCGGATGCGCGAGGTCCTGCAGGA
CATCTACACGGACAGCCCCACCCCGTCCGAGGCATGGGTGCGCCTGCATCGCCTGTGCTCGTGGATGATGCACTCGAGGCTCGAGCCCATGAAGGACTTC
GCCCGCATGATCCGACGCCACTTCGCCGAGATCGTCGCCTACTTCGAGCACCCGTACACCAACGCCGTCCTCGAGGGCGCCGACAGCGTCATCCAGAACG
TCAAACGACGGGCCAGCGGCTTCCGTAACATGGACTACTTCGCCACCATGATCTACCTGACCTGCGGCAAACTCGACCTCAAAGCCGTCACCACCACTTG
ACCATCACCCACCACAAACAGCGAATAGCC
Protein section
ORF number : 1
ORF 1
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1236 bp | 411 aa | 66 | 1301 | + | No |
Chemistry : Unknow
ORF sequence :
MDTSYLFTAALQLQSPWKVESVDFRDAGDGRQELRIAIGFEAGSRFCCPEPGCDETVCPVHDTRERTWRHPDFFRYKAFIHAGVPRVSCPVHGVMPVPAP
WARPGSGFTLLFEAWAVEMARHLPVSTLAEQLDETDTRLWRSVAHYVDEARRLEDYMGVEAIGIDETSRRGRNCITVVADLVEHDVINVTPGKDPATVER
FSRDFMDHNGVPEYVRLVACDMSLGFRKGIREHLPHARRIVDRFHVARHANEAVDKAGKTEGRSNPLLKRTKYLWLRNEESLTELQVETKRNLTRQRLKT
GRACRMREVLQDIYTDSPTPSEAWVRLHRLCSWMMHSRLEPMKDFARMIRRHFAEIVAYFEHPYTNAVLEGADSVIQNVKRRASGFRNMDYFATMIYLTC
GKLDLKAVTTT
WARPGSGFTLLFEAWAVEMARHLPVSTLAEQLDETDTRLWRSVAHYVDEARRLEDYMGVEAIGIDETSRRGRNCITVVADLVEHDVINVTPGKDPATVER
FSRDFMDHNGVPEYVRLVACDMSLGFRKGIREHLPHARRIVDRFHVARHANEAVDKAGKTEGRSNPLLKRTKYLWLRNEESLTELQVETKRNLTRQRLKT
GRACRMREVLQDIYTDSPTPSEAWVRLHRLCSWMMHSRLEPMKDFARMIRRHFAEIVAYFEHPYTNAVLEGADSVIQNVKRRASGFRNMDYFATMIYLTC
GKLDLKAVTTT
Blast result :
Comments
The genome of NCC2705 does not show any full copy of ISBlo6. However 14 potential pieces of this element have been found scattered along the chromosome representing at least 4 copies. An in silico reconstruction of ISBlo6 has been undertaken with the hope to gain insight into the recombination events which truncated these elements. Amongst them, two have been truncated by the insertion of others IS elements (ISBlo2a and ISBlo1b). The in silico version of ISBlo6 sequence was obtained by the determining of the majority of the 12 pieces. This ISBlo6_in_silico satisfies the requirement of the ISL3 family and its ORF shows a very good homology with the transposase of ISAe1 (Blast E-value: 2e-72).
Coordinates:
ISBlo6a complement(190873..191861)
ISBlo6b (294601..295603)join(1525391..1525663)
ISBlo6c (191939..192150)join(194741..194813)
ISBlo6d complement(1903554..1903893)
ISBlo6e complement(1359823..1359915)
ISBlo6f complement(1763137..1763641)
ISBlo6m complement(191872..191896)
Coordinates:
ISBlo6a complement(190873..191861)
ISBlo6b (294601..295603)join(1525391..1525663)
ISBlo6c (191939..192150)join(194741..194813)
ISBlo6d complement(1903554..1903893)
ISBlo6e complement(1359823..1359915)
ISBlo6f complement(1763137..1763641)
ISBlo6m complement(191872..191896)
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