ISRj2
- Family IS3
- Group IS150
Isoform Synonym(s) RSbeta, RSRj-beta
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_004463 | ND | Bradyrhizobium japonicum | Bradyrhizobium japonicum USDA110 |
DNA section
IS Length : 1364 bp
Ends
IR Length : 21/26
IRL : AGAGCTGGCCCCGCAAATTCGGACAGTAGCTTGAGTGGATTTTCTGCCTG
IRR : AGAGCTGGCCCCGGTTGTTTGGACAGCGCCCCGCTGGATTTAAGTGGATT
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CCTTTGATTC | GTT | CCTCGTTCAT | 3 |
DNA sequence
AGAGCTGGCCCCGCAAATTCGGACAGTAGCTTGAGTGGATTTTCTGCCTGACAGCGGCGAGGATTCTTGCTGCGAATCAGGAGCGAAGATGACGAAGAAG
AGCCGCCGGACGCATTCTCCGGCATTCAAGGCGAAGGTTGCTTTGGCTGCGGTCAAAGGAGACAAGACACTGGCGGAGCTGGCGCAACTGTTTGATGTTC
ATCCGAACCAGATCACGATCTGGAAAAACCAGCTCCTGGAAGGCGCCGCCGGCGTGTTTGGGCATGACAAGACATCGGCCGAGACGCCGGTCGATTTGAA
GGCGTTGCATGCCAAGATCGGCGAGCTGGCGTTGGAAAACGATTTTTTGTCCGGCGCGCTCACCAAGGCGGGCCTGCTGAGCGCAAAGCGATGATCGACC
GCGGTCATGATCTTTCTATCGTGCGCCAGGCGAAGGTCCTGAAGCTGGCTCGCAGCACGGTCTACTATGAACCTCGGCCAGTTTCGGCCGAGGACCTTGC
CTTGATGCGTCGGCTCGATGAGCTGCATCTCGATTATCCCTTCGCGGGAGCGCGTATGCTGCGATCGTTGCTGCGGCGGGAGGGGGTATACGCCGGTCGC
CGCCACATCGCGACGCTGATGAAGCGCATGGGGATCGAGGCGGTCTATCGTCGCCCGAACACGAGCAAGCCGGCTCCGGGTCACAAGATCTACCCGTACC
TGTTGCGCGGATTGAAGATCGAGCGGCCCGACCATGCGTGGGCAATGGACATCACCTACATTCCGATGCGGCGTGGCTTCGTCTATCTCGCGGCGGTCGT
CGATGTGTTCAGCCGACGGGTCCTGGCCCATCGCGTCTCGATCACAATGGAGGCGGCCTTCTGCGTCCAAGCGGTCCAGGAGGCGTTGGCGAAGCACGGC
AGACCCGAGATTTTCAACACGGATCAGGGCAGCCAGTTCACCAGCCTCGAGTTCACCGATGTGCTGCTGGACGCGAAGATCGCCATCAGCATGGACGGCA
AGGGCGCCTGGCGCGACAACGTGTTTGTCGAGCGGCTCTGGCGCACGGTCAAATACGAAGAAGTTTATCTCCGCGCCTACGACAGCGTGTCCGAGGCGCG
AGCGTCAATTGCCAAGTATCTGGCCTTCTACAATCAGGGACGCCCTCACTCGAGCCTTGACGGGCGCACGCCCGACGAGGCTTACTTCGGCACGCAAGCT
ATGGTGATGGCCGCATGACCGTCGCCGACGATTTTGTCGTCGCTCTGGTCGGGCTACGCCCTCCCGACGCAACGACAAAATCGTAAAGCCCCGCGTTCAG
CATAACCCGGCAGGAATCCACTTAAATCCAGCGGGGCGCTGTCCAAACAACCGGGGCCAGCTCT
AGCCGCCGGACGCATTCTCCGGCATTCAAGGCGAAGGTTGCTTTGGCTGCGGTCAAAGGAGACAAGACACTGGCGGAGCTGGCGCAACTGTTTGATGTTC
ATCCGAACCAGATCACGATCTGGAAAAACCAGCTCCTGGAAGGCGCCGCCGGCGTGTTTGGGCATGACAAGACATCGGCCGAGACGCCGGTCGATTTGAA
GGCGTTGCATGCCAAGATCGGCGAGCTGGCGTTGGAAAACGATTTTTTGTCCGGCGCGCTCACCAAGGCGGGCCTGCTGAGCGCAAAGCGATGATCGACC
GCGGTCATGATCTTTCTATCGTGCGCCAGGCGAAGGTCCTGAAGCTGGCTCGCAGCACGGTCTACTATGAACCTCGGCCAGTTTCGGCCGAGGACCTTGC
CTTGATGCGTCGGCTCGATGAGCTGCATCTCGATTATCCCTTCGCGGGAGCGCGTATGCTGCGATCGTTGCTGCGGCGGGAGGGGGTATACGCCGGTCGC
CGCCACATCGCGACGCTGATGAAGCGCATGGGGATCGAGGCGGTCTATCGTCGCCCGAACACGAGCAAGCCGGCTCCGGGTCACAAGATCTACCCGTACC
TGTTGCGCGGATTGAAGATCGAGCGGCCCGACCATGCGTGGGCAATGGACATCACCTACATTCCGATGCGGCGTGGCTTCGTCTATCTCGCGGCGGTCGT
CGATGTGTTCAGCCGACGGGTCCTGGCCCATCGCGTCTCGATCACAATGGAGGCGGCCTTCTGCGTCCAAGCGGTCCAGGAGGCGTTGGCGAAGCACGGC
AGACCCGAGATTTTCAACACGGATCAGGGCAGCCAGTTCACCAGCCTCGAGTTCACCGATGTGCTGCTGGACGCGAAGATCGCCATCAGCATGGACGGCA
AGGGCGCCTGGCGCGACAACGTGTTTGTCGAGCGGCTCTGGCGCACGGTCAAATACGAAGAAGTTTATCTCCGCGCCTACGACAGCGTGTCCGAGGCGCG
AGCGTCAATTGCCAAGTATCTGGCCTTCTACAATCAGGGACGCCCTCACTCGAGCCTTGACGGGCGCACGCCCGACGAGGCTTACTTCGGCACGCAAGCT
ATGGTGATGGCCGCATGACCGTCGCCGACGATTTTGTCGTCGCTCTGGTCGGGCTACGCCCTCCCGACGCAACGACAAAATCGTAAAGCCCCGCGTTCAG
CATAACCCGGCAGGAATCCACTTAAATCCAGCGGGGCGCTGTCCAAACAACCGGGGCCAGCTCT
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 | |
---|---|---|---|---|---|
306 bp | 119 aa | 89 | 394 | + | No |
Description : First part of the transposase
ORF sequence :
MTKKSRRTHSPAFKAKVALAAVKGDKTLAELAQLFDVHPNQITIWKNQLLEGAAGVFGHDKTSAETPVDLKALHAKIGELALENDFLSGALTKAGLLSAK
R
R
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
951 bp | 316 aa | 268 | 1218 | + | No |
Description : Second part of the transposase
ORF sequence :
QDIGRDAGRFEGVACQDRRAGVGKRFFVRRAHQGGPAERKAMIDRGHDLSIVRQAKVLKLARSTVYYEPRPVSAEDLALMRRLDELHLDYPFAGARMLRS
LLRREGVYAGRRHIATLMKRMGIEAVYRRPNTSKPAPGHKIYPYLLRGLKIERPDHAWAMDITYIPMRRGFVYLAAVVDVFSRRVLAHRVSITMEAAFCV
QAVQEALAKHGRPEIFNTDQGSQFTSLEFTDVLLDAKIAISMDGKGAWRDNVFVERLWRTVKYEEVYLRAYDSVSEARASIAKYLAFYNQGRPHSSLDGR
TPDEAYFGTQAMVMAA
LLRREGVYAGRRHIATLMKRMGIEAVYRRPNTSKPAPGHKIYPYLLRGLKIERPDHAWAMDITYIPMRRGFVYLAAVVDVFSRRVLAHRVSITMEAAFCV
QAVQEALAKHGRPEIFNTDQGSQFTSLEFTDVLLDAKIAISMDGKGAWRDNVFVERLWRTVKYEEVYLRAYDSVSEARASIAKYLAFYNQGRPHSSLDGR
TPDEAYFGTQAMVMAA
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1130 bp | 376 aa | 89 | 1218 | + | Yes |
Chemistry : DDE
ORF sequence :
MTKKSRRTHSPAFKAKVALAAVKGDKTLAELAQLFDVHPNQITIWKNQLLEGAAGVFGHDKTSAETPVDLKALHAKIGELALENDFFVRRAHQGGPAERK
AMIDRGHDLSIVRQAKVLKLARSTVYYEPRPVSAEDLALMRRLDELHLDYPFAGARMLRSLLRREGVYAGRRHIATLMKRMGIEAVYRRPNTSKPAPGHK
IYPYLLRGLKIERPDHAWAMDITYIPMRRGFVYLAAVVDVFSRRVLAHRVSITMEAAFCVQAVQEALAKHGRPEIFNTDQGSQFTSLEFTDVLLDAKIAI
SMDGKGAWRDNVFVERLWRTVKYEEVYLRAYDSVSEARASIAKYLAFYNQGRPHSSLDGRTPDEAYFGTQAMVMAA
AMIDRGHDLSIVRQAKVLKLARSTVYYEPRPVSAEDLALMRRLDELHLDYPFAGARMLRSLLRREGVYAGRRHIATLMKRMGIEAVYRRPNTSKPAPGHK
IYPYLLRGLKIERPDHAWAMDITYIPMRRGFVYLAAVVDVFSRRVLAHRVSITMEAAFCVQAVQEALAKHGRPEIFNTDQGSQFTSLEFTDVLLDAKIAI
SMDGKGAWRDNVFVERLWRTVKYEEVYLRAYDSVSEARASIAKYLAFYNQGRPHSSLDGRTPDEAYFGTQAMVMAA
Blast result :
Comments
There are at least six ISRj2 copies in Bradyrhizobium japonicum USDA110, three being located in the nifDK-nifH region (Kaluza et al., 1985).
ISRj2 is 82% aa similar to ISKpn11.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
ISRj2 is 82% aa similar to ISKpn11.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Kaluza, K., Hahn, M., and Hennecke, H. (1985) J. Bacteriol. 162, 535-542.
2] Hahn, M., and Hennecke, H. (1987) Appl. Environ. Microbiol. 53, 2247-2252.
2] Hahn, M., and Hennecke, H. (1987) Appl. Environ. Microbiol. 53, 2247-2252.