ISMpa1
- Family IS110
- Group
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
AY169961 | ND | Mycobacterium avium | Mycobacterium avium subsp. Paratuberculosis Mycobacterium avium subsp. avium |
DNA section
IS Length : 1500 bp
Ends
Left end : ATGGGGATCGAACAGTGAGCCTTCGGCTGTTGATCCCTTGTTCGGGGGACGCTGTTTACCGAGCCGCCGGTCGGTGAGCGTCGTTGCCAGCTGAAGCGAT
Right end : ACGACACCGAACCCACTACGACGAACACAAAGCCTGGGCACACCGCCAAACCAACCCCGACTCCCAGGCGGCTTGACAACTTACGGACCTGGGATGTCTA
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|
DNA sequence
ATGGGGATCGAACAGTGAGCCTTCGGCTGTTGATCCCTTGTTCGGGGGACGCTGTTTACCGAGCCGCCGGTCGGTGAGCGTCGTTGCCAGCTGAAGCGAT
GGCCGACTTCTAAGGCTAGATCACGCCCCGGCCGGTTGGTGAGGGTTCCTGTAGCACTGATGGGGTGTCGTGCCGTTGAGCACTGATCCATTAGCTTGTC
GCCGGGTGCCCTTGGGCTCGAACATGTTCGATGACCACCGAGGAGGCGCTACGTGATATTTGTCGGCGACGATTGGGCGGAGGATCATCACGACGTCCAC
CTGATGGATGAATCCGGGGCCCGGCTGGCCTCGCGTCGGTTACCGGAGGGACTTGCCGGCATCGGCGAGTTCCATCAGCTTTTGGCCCGCCATGCCGAAG
AGCCCGACCAGGTCGTGATTGGAATCGAAACCGACCGTGGTTTGTGGGTCGAGGCGCTCACCGCGGCCGATTACCAGGTGTATGCGATCAACCCGATGGC
GGCCGCCCGCTACCGCGACCGCCACCATGTGTCGGGGGCCAAATCCGATGCCGGGGACGCCAAGCTCTTGGCGGATCTGGTGCGCACCGATCGCCACAAT
CACCGCCGCGTCGCCGGTGACTCCGCTGATACCGAGGCGGTCAAAGTGCTGGCCCGGGCACATCAGAATCTGATCTGGACCCGCAATCGGCACACCAACG
CGCTGCGCTCGGCGCTGCGCGAGTACTACCCAGGCGCGCTGGAGGCGTTCGACGATCTGCACGACCGCGACGCTCTGGCGATCCTGGGCCGAGCGCCCAC
CCCCATGCAAGCGGCGAACCTGAGTCTGTCGAAGATCCGGTCTGCACTCAAAGCCGCTGGGCGACAACGCAACCTCGACACCGTCGCCCAGGACATTCAA
ACCGCTTTACGCGCTGAGCAGCTCGCCGCCCCTGCCGCGGTCACCGCCGCGTTCGGCGCAACCACCCGCGCCACGGTCGGCATCATCGCTGAACTGAACC
GCCAGATCACCGACCTTGAGGCCGAACTGGCAACACATTTTGAGACACACCCGGACGCCGACATCTACCGCTCCCTGCCAGGACTTGGTGTCATCCTCGG
CGCCCGGGTGCTCGGTGAGTTCGGGGACGACCCGAACAGGTACACCACCGCCAAGTGTCGCAAAAACTACGCCGGAACGTCGCCGCTGACCGTCGCCTCC
GGCCGCAAACGCGCCGTGCTGGCCCGCCACGTCCGCAACCGCCGGCTCTACGACGCGATCGACCAATGGGCCTTCTGCGCCCTGAACACCAGCCCCGGCG
CCCGCCTGTTCTACGACCGGCGTCGCGCTGCCGGCGACCTCCACCACCAAGCGCTACGCGCCCTCGGTAACCGCCTCGTAGGCATCCTCCACGGCTGCCT
ACGACACCGAACCCACTACGACGAACACAAAGCCTGGGCACACCGCCAAACCAACCCCGACTCCCAGGCGGCTTGACAACTTACGGACCTGGGATGTCTA
GGCCGACTTCTAAGGCTAGATCACGCCCCGGCCGGTTGGTGAGGGTTCCTGTAGCACTGATGGGGTGTCGTGCCGTTGAGCACTGATCCATTAGCTTGTC
GCCGGGTGCCCTTGGGCTCGAACATGTTCGATGACCACCGAGGAGGCGCTACGTGATATTTGTCGGCGACGATTGGGCGGAGGATCATCACGACGTCCAC
CTGATGGATGAATCCGGGGCCCGGCTGGCCTCGCGTCGGTTACCGGAGGGACTTGCCGGCATCGGCGAGTTCCATCAGCTTTTGGCCCGCCATGCCGAAG
AGCCCGACCAGGTCGTGATTGGAATCGAAACCGACCGTGGTTTGTGGGTCGAGGCGCTCACCGCGGCCGATTACCAGGTGTATGCGATCAACCCGATGGC
GGCCGCCCGCTACCGCGACCGCCACCATGTGTCGGGGGCCAAATCCGATGCCGGGGACGCCAAGCTCTTGGCGGATCTGGTGCGCACCGATCGCCACAAT
CACCGCCGCGTCGCCGGTGACTCCGCTGATACCGAGGCGGTCAAAGTGCTGGCCCGGGCACATCAGAATCTGATCTGGACCCGCAATCGGCACACCAACG
CGCTGCGCTCGGCGCTGCGCGAGTACTACCCAGGCGCGCTGGAGGCGTTCGACGATCTGCACGACCGCGACGCTCTGGCGATCCTGGGCCGAGCGCCCAC
CCCCATGCAAGCGGCGAACCTGAGTCTGTCGAAGATCCGGTCTGCACTCAAAGCCGCTGGGCGACAACGCAACCTCGACACCGTCGCCCAGGACATTCAA
ACCGCTTTACGCGCTGAGCAGCTCGCCGCCCCTGCCGCGGTCACCGCCGCGTTCGGCGCAACCACCCGCGCCACGGTCGGCATCATCGCTGAACTGAACC
GCCAGATCACCGACCTTGAGGCCGAACTGGCAACACATTTTGAGACACACCCGGACGCCGACATCTACCGCTCCCTGCCAGGACTTGGTGTCATCCTCGG
CGCCCGGGTGCTCGGTGAGTTCGGGGACGACCCGAACAGGTACACCACCGCCAAGTGTCGCAAAAACTACGCCGGAACGTCGCCGCTGACCGTCGCCTCC
GGCCGCAAACGCGCCGTGCTGGCCCGCCACGTCCGCAACCGCCGGCTCTACGACGCGATCGACCAATGGGCCTTCTGCGCCCTGAACACCAGCCCCGGCG
CCCGCCTGTTCTACGACCGGCGTCGCGCTGCCGGCGACCTCCACCACCAAGCGCTACGCGCCCTCGGTAACCGCCTCGTAGGCATCCTCCACGGCTGCCT
ACGACACCGAACCCACTACGACGAACACAAAGCCTGGGCACACCGCCAAACCAACCCCGACTCCCAGGCGGCTTGACAACTTACGGACCTGGGATGTCTA
Protein section
ORF number : 1
ORF 1
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1224 bp | 407 aa | 253 | 1476 | + | No |
Chemistry : DEDD
ORF sequence :
MIFVGDDWAEDHHDVHLMDESGARLASRRLPEGLAGIGEFHQLLARHAEEPDQVVIGIETDRGLWVEALTAADYQVYAINPMAAARYRDRHHVSGAKSDA
GDAKLLADLVRTDRHNHRRVAGDSADTEAVKVLARAHQNLIWTRNRHTNALRSALREYYPGALEAFDDLHDRDALAILGRAPTPMQAANLSLSKIRSALK
AAGRQRNLDTVAQDIQTALRAEQLAAPAAVTAAFGATTRATVGIIAELNRQITDLEAELATHFETHPDADIYRSLPGLGVILGARVLGEFGDDPNRYTTA
KCRKNYAGTSPLTVASGRKRAVLARHVRNRRLYDAIDQWAFCALNTSPGARLFYDRRRAAGDLHHQALRALGNRLVGILHGCLRHRTHYDEHKAWAHRQT
NPDSQAA
GDAKLLADLVRTDRHNHRRVAGDSADTEAVKVLARAHQNLIWTRNRHTNALRSALREYYPGALEAFDDLHDRDALAILGRAPTPMQAANLSLSKIRSALK
AAGRQRNLDTVAQDIQTALRAEQLAAPAAVTAAFGATTRATVGIIAELNRQITDLEAELATHFETHPDADIYRSLPGLGVILGARVLGEFGDDPNRYTTA
KCRKNYAGTSPLTVASGRKRAVLARHVRNRRLYDAIDQWAFCALNTSPGARLFYDRRRAAGDLHHQALRALGNRLVGILHGCLRHRTHYDEHKAWAHRQT
NPDSQAA
Blast result :
Comments
ISMpa1 is 60% aa similar to IS117. There are 3 copies in Mycobacterium avium subsp. paratuberculosis genome.
The element had inserted into the 3′ end of the highly conserved mycobacterial genes prrB and a homologue of M. tuberculosis Rv1593c, and between a putative cytochrome p450 oxygenase and a putative hydrolase. The IS element was present in all (n=11) M. avium subsp. paratuberculosis strains but not detected in most other mycobacterial species examined, including 10 M. avium subsp. avium isolates of human, avian and porcine origin.However two porcine isolates of M. avium subsp. avium and the reference strain IWGMT49 did harbour ISMpa1.
A consensus for the insertion sites was CCAGN(0–1)CTA*GCCN(0–6)GCCG where * is ISMpa1.
The element had inserted into the 3′ end of the highly conserved mycobacterial genes prrB and a homologue of M. tuberculosis Rv1593c, and between a putative cytochrome p450 oxygenase and a putative hydrolase. The IS element was present in all (n=11) M. avium subsp. paratuberculosis strains but not detected in most other mycobacterial species examined, including 10 M. avium subsp. avium isolates of human, avian and porcine origin.However two porcine isolates of M. avium subsp. avium and the reference strain IWGMT49 did harbour ISMpa1.
A consensus for the insertion sites was CCAGN(0–1)CTA*GCCN(0–6)GCCG where * is ISMpa1.
References
1] Olsen,I., Johansen,T.B., Billman-Jacobe,H., Nilsen,S.F. and Djonne,B.(2004) Vet. Microbiol. 98 (3-4), 297-306