ISRm5
- Family IS256
- Group
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| U08627 | ND | Rhizobium meliloti | Rhizobium meliloti IZ450 |
DNA section
IS Length : 1340 bp
Ends
IR Length : 22/27
IRL : GGTAGTGTGCTGAAGGTTCTGCAAATTCACTGAGAGAGGCGGTCATGGCA
IRR : GGTTGTGTGCGTCAAGTTCTGCAAAATTGGGCGGTCATGCGTGCTGGTCA
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| AGGGGACGAG | TTCGCTTT | TGTTCGTCGA | 8 |
| CCCCGCGCGG | CACGATAG | CCGAGGTTGA | 8 |
| CTGGAAAGAA | AACGATTG | CGAACGGGCG | 8 |
| GCCGGTTGAG | GGGCAAGC | AAGCCCGACC | 8 |
DNA sequence
GGTAGTGTGCTGAAGGTTCTGCAAATTCACTGAGAGAGGCGGTCATGGCAGGCTGGTGATGTTGACGTCACCTGATTCCCTGGAAGGAACGCCACCATGA
CCAAGACTGAAGGTAAGACAGCCAGCGCCGCCGTCAAAGACATTTTGCTTTCGAACCCCGATGGCCTGCGCGAGGTGATCCGCACGGTGATGCAGGAGGT
GCTGGAAGCGGAGATGGACGAGGCGCTGGGAGCTGCGAAAGGCGAGCGCACGCCGGAGCGGCTCGGCTACCGTTCGGGCCACTATGGCCGCACGCTGATC
ACGCGGGTGGGCAAGCTCGAGCTGCGGGTGCCGCAGGATCGCTCGGGGCACTTCTCCACCGAATTGTTCGAACGCTATCAGCGCTCCGAGCGGGCGCTGG
TGGCAACCTTGGCGGAGATGTATGTGCAAGGGGTGTCGACGCGGAAGGTCAAGGCGATCACCGAGGAGCTGTGCGGCCATGCCTTCTCGGCGTCATCGAT
CTCGGCGATCAACAAGCGGCTGGACGAGAGCCTGAAGGCCTTTGCCGAGCGCTCGCTTGAAGAGCCGTTTGCCTACCTGATCCTCGATGCCCGTTATGAG
AAGGTGCGCGAGGCCGGTGTGGTGATGAGCCAGGCGGTGTTGATCGCTGTCGGCATCGACTGGGACGGACGGCGGCAGATCCTGTCGGTCGAGATGGCCG
GCCGTGAAAGCCGTTCCGCCTGGAAGGACTTCCTCGTCAGGCTGAAAGGGCGCGGTTTGAAGGGCGTCGAACTGGTGGTCTCCGACGACCATGCCGGTCT
CGTCGCGGCAATTGGCGAGGTGATCCCGGAAGCTGCCTGGCAGCGCTGTTACGTGCATTTCCTCAGGAACGCCCTCGATCACCTGCCGCGCAAACATGGC
GACGATTGCCTGCAGGAGCTTCGATGGCTCTATGATCGCCGCGACCTTGATGAGGCGAAGGCCGATCTCGCCGCGTGGCTGGGAAAATGGTCGGTCCGCT
ATCCGCGCCTGACCTCCTGGGTTGAGGAAACCATCGAGCAGACGCTGACCTTCTTTCGTCTGCCGCGCCAGCATCACAAGCACCTCAAGAGCACCAACAT
GCTGGAACGCCTCAACGAGGAAATCCGCCGCAGAACCTACGTCGTGCGCATCTTTCCCAACACCGAGAGCTGCCTACGACTCGTCCGCGCCCTCGCCGTC
GAAACCCACGAAAACTGGATGGAGGCCAATCGCTACATCAACATGGACGACCTGCGAGAGCACAAGAAACTCGCACTCCGTCAAGCCGCATGACCAGCAC
GCATGACCGCCCAATTTTGCAGAACTTGACGCACACAACC
CCAAGACTGAAGGTAAGACAGCCAGCGCCGCCGTCAAAGACATTTTGCTTTCGAACCCCGATGGCCTGCGCGAGGTGATCCGCACGGTGATGCAGGAGGT
GCTGGAAGCGGAGATGGACGAGGCGCTGGGAGCTGCGAAAGGCGAGCGCACGCCGGAGCGGCTCGGCTACCGTTCGGGCCACTATGGCCGCACGCTGATC
ACGCGGGTGGGCAAGCTCGAGCTGCGGGTGCCGCAGGATCGCTCGGGGCACTTCTCCACCGAATTGTTCGAACGCTATCAGCGCTCCGAGCGGGCGCTGG
TGGCAACCTTGGCGGAGATGTATGTGCAAGGGGTGTCGACGCGGAAGGTCAAGGCGATCACCGAGGAGCTGTGCGGCCATGCCTTCTCGGCGTCATCGAT
CTCGGCGATCAACAAGCGGCTGGACGAGAGCCTGAAGGCCTTTGCCGAGCGCTCGCTTGAAGAGCCGTTTGCCTACCTGATCCTCGATGCCCGTTATGAG
AAGGTGCGCGAGGCCGGTGTGGTGATGAGCCAGGCGGTGTTGATCGCTGTCGGCATCGACTGGGACGGACGGCGGCAGATCCTGTCGGTCGAGATGGCCG
GCCGTGAAAGCCGTTCCGCCTGGAAGGACTTCCTCGTCAGGCTGAAAGGGCGCGGTTTGAAGGGCGTCGAACTGGTGGTCTCCGACGACCATGCCGGTCT
CGTCGCGGCAATTGGCGAGGTGATCCCGGAAGCTGCCTGGCAGCGCTGTTACGTGCATTTCCTCAGGAACGCCCTCGATCACCTGCCGCGCAAACATGGC
GACGATTGCCTGCAGGAGCTTCGATGGCTCTATGATCGCCGCGACCTTGATGAGGCGAAGGCCGATCTCGCCGCGTGGCTGGGAAAATGGTCGGTCCGCT
ATCCGCGCCTGACCTCCTGGGTTGAGGAAACCATCGAGCAGACGCTGACCTTCTTTCGTCTGCCGCGCCAGCATCACAAGCACCTCAAGAGCACCAACAT
GCTGGAACGCCTCAACGAGGAAATCCGCCGCAGAACCTACGTCGTGCGCATCTTTCCCAACACCGAGAGCTGCCTACGACTCGTCCGCGCCCTCGCCGTC
GAAACCCACGAAAACTGGATGGAGGCCAATCGCTACATCAACATGGACGACCTGCGAGAGCACAAGAAACTCGCACTCCGTCAAGCCGCATGACCAGCAC
GCATGACCGCCCAATTTTGCAGAACTTGACGCACACAACC
Protein section
ORF number : 1
ORF 1
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1197 bp | 398 aa | 97 | 1293 | + | No |
Chemistry : DDE
ORF sequence :
MTKTEGKTASAAVKDILLSNPDGLREVIRTVMQEVLEAEMDEALGAAKGERTPERLGYRSGHYGRTLITRVGKLELRVPQDRSGHFSTELFERYQRSERA
LVATLAEMYVQGVSTRKVKAITEELCGHAFSASSISAINKRLDESLKAFAERSLEEPFAYLILDARYEKVREAGVVMSQAVLIAVGIDWDGRRQILSVEM
AGRESRSAWKDFLVRLKGRGLKGVELVVSDDHAGLVAAIGEVIPEAAWQRCYVHFLRNALDHLPRKHGDDCLQELRWLYDRRDLDEAKADLAAWLGKWSV
RYPRLTSWVEETIEQTLTFFRLPRQHHKHLKSTNMLERLNEEIRRRTYVVRIFPNTESCLRLVRALAVETHENWMEANRYINMDDLREHKKLALRQAA
LVATLAEMYVQGVSTRKVKAITEELCGHAFSASSISAINKRLDESLKAFAERSLEEPFAYLILDARYEKVREAGVVMSQAVLIAVGIDWDGRRQILSVEM
AGRESRSAWKDFLVRLKGRGLKGVELVVSDDHAGLVAAIGEVIPEAAWQRCYVHFLRNALDHLPRKHGDDCLQELRWLYDRRDLDEAKADLAAWLGKWSV
RYPRLTSWVEETIEQTLTFFRLPRQHHKHLKSTNMLERLNEEIRRRTYVVRIFPNTESCLRLVRALAVETHENWMEANRYINMDDLREHKKLALRQAA
Blast result :
Comments
ISRm5 was originally discovered because of the insertion of an ISRm3 copy in the middle of it. This association is apparently quite common, as shown by hybridization experiments. ISRm5 transposition activity has been tested for, but not recorded yet (Laberge et al., 1995). ISRm5 is present in 61/61 isolates of Rhizobium meliloti, with a copy number varying between 3 and 11 (Barran et al., 1994). There is also a good correlation between ISRm5-generated hybridization profiles and phage typing. A species-specific ISRm5-derived probe has also been used for the detection and genomic characterization (relationship) of nonsymbiotic and symbiotic R meliloti isolated from soil or from alfalfa (Medicago sativa) and sweet clover (Melilotus alba) (Bromfield et al., 1995).
References
1] Barran, L.R., Bromfield, E.S.P., Laberge, S., and Weatcroft, R. (1994) Mol. Ecol. 3, 267-270.
2] Bromfield, E.S.P., Barran, L.R., and Weatcroft, R. (1995) Mol. Ecol. 4, 183-188.
3] Laberge, S., Middleton, A.T., and Wheatcroft, R. (1995) J. Bacteriol. 177, 3133-3142.
2] Bromfield, E.S.P., Barran, L.R., and Weatcroft, R. (1995) Mol. Ecol. 4, 183-188.
3] Laberge, S., Middleton, A.T., and Wheatcroft, R. (1995) J. Bacteriol. 177, 3133-3142.