ISBj3
- Family IS3
- Group IS150
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| BA000040 | ND | Bradyrhizobium japonicum | Bradyrhizobium japonicum USDA 110 DNA |
DNA section
IS Length : 1284 bp
Ends
IR Length : 22/26
IRL : AGAGCTGGCTCCGGAAATCTGGACAGGGCGGTAAGTGGAGTTTCTGCCTG
IRR : AGAGCTGGCCCCGGTTATCTGAACAGCAATTCCGCGTCGATAAGTGGAGT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| ACCGCGTGAA | GGT | GCCGCATCTC | 3 |
| GTGTGCCAGC | GGG | CGAAGTCGGC | 3 |
DNA sequence
AGAGCTGGCTCCGGAAATCTGGACAGGGCGGTAAGTGGAGTTTCTGCCTGACGGCGGGCAAGATTGTCCCGCGAATCAGGAGAGACGATGAGCAGACGAG
CCCGCCGGCAACACGCACCGGCATTCAAGGCCAAGGTGGCGTTAGCGGCGATCAAGGGCGAGATGACGCTGGCCCAGCTGGCTGAGCATTTCGACGTGCA
CCCGAACCAGATCACGCAGTGGAAGTCCCAGCTTCAGGAGGCGGCGGCCGAGGTGTTTGGTCCTGGCGGTGGCAACAGAGCGAGCGAGTCCGCGGTAGAC
GTGAAAACGCTGCACGCCAAGATCGGGGAGCTGACGCTTGAGAACGATTTTTTAGAAGGCGCGCTCAGCAAAGCCGGCCTGCTGAGCGCAAAGCGATGAT
CGACCGTGAGCACGACCTGCCGATCACCAAACAGGCGGAAGTTTTGAAGATCAGCCGTGGCAGTATCTATTATCTACCACGTCCGGTGTCGCCCGCCGAC
CTCGCGATCATGCAGCGGCTTGACCGGCTGCACCTGGAGTTTCCTTTCGCCGGTTCGCGAATGTTGCGAGACCTGCTGGCTGCCGAGGGGTGCAAGATCG
GCCGCCGGCATGTCAAAACGCTGATGCGGCGGATGGGGATAGAGGCGCTCTATCGCCGGCCGCGTACCACCAAGCCCGAACCCGGGCACAAGATCTATCC
GTATCTGCTGCGCGGGATGGAGATCACAGGCCCGAACCAGGTCTGGGCGATGGACATCACCTACATCCCGATGGCGCGCGGCTTCGTCTATCTCGCGGTG
GTGCTGGACTGGTTCAGCCGCCGGGTGCTGTCGTGGCGCGTCTCGATCACTATGGAAGCCGCATTCTGCGTCGAGACGCTGGAGGACGCTCTCGCTCGCC
ATGGCAAGCCGGACATCTTCAATACCGACCAAGGCTCGCAGTTCACGGGCGCCGCGTTCACCGGCATGCTCGCCAGTCATGGCATCGCCATCAGCATGGA
CGGTCGGGGCGCCTGGCGCGACAACGTGTTCGTCGAGCGTCTGTGGCGCAGCATCAAATACGAAGAGGTCTATCTGCGCGCCTACGACACCGTGTCCGAC
GCCCGCGCCTCGATCGGCCGATACCTCGCCTTTTACAATGGCCGGCGTCCCCACTCGAGCCTTGACGGCGGCACCCCCGATCAAGCTTACTTCAGCCCGC
TGCCGTTCCGCGCGGCAGCCTAACTCTGGCAGAAACTCCACTTATCGACGCGGAATTGCTGTTCAGATAACCGGGGCCAGCTCT
CCCGCCGGCAACACGCACCGGCATTCAAGGCCAAGGTGGCGTTAGCGGCGATCAAGGGCGAGATGACGCTGGCCCAGCTGGCTGAGCATTTCGACGTGCA
CCCGAACCAGATCACGCAGTGGAAGTCCCAGCTTCAGGAGGCGGCGGCCGAGGTGTTTGGTCCTGGCGGTGGCAACAGAGCGAGCGAGTCCGCGGTAGAC
GTGAAAACGCTGCACGCCAAGATCGGGGAGCTGACGCTTGAGAACGATTTTTTAGAAGGCGCGCTCAGCAAAGCCGGCCTGCTGAGCGCAAAGCGATGAT
CGACCGTGAGCACGACCTGCCGATCACCAAACAGGCGGAAGTTTTGAAGATCAGCCGTGGCAGTATCTATTATCTACCACGTCCGGTGTCGCCCGCCGAC
CTCGCGATCATGCAGCGGCTTGACCGGCTGCACCTGGAGTTTCCTTTCGCCGGTTCGCGAATGTTGCGAGACCTGCTGGCTGCCGAGGGGTGCAAGATCG
GCCGCCGGCATGTCAAAACGCTGATGCGGCGGATGGGGATAGAGGCGCTCTATCGCCGGCCGCGTACCACCAAGCCCGAACCCGGGCACAAGATCTATCC
GTATCTGCTGCGCGGGATGGAGATCACAGGCCCGAACCAGGTCTGGGCGATGGACATCACCTACATCCCGATGGCGCGCGGCTTCGTCTATCTCGCGGTG
GTGCTGGACTGGTTCAGCCGCCGGGTGCTGTCGTGGCGCGTCTCGATCACTATGGAAGCCGCATTCTGCGTCGAGACGCTGGAGGACGCTCTCGCTCGCC
ATGGCAAGCCGGACATCTTCAATACCGACCAAGGCTCGCAGTTCACGGGCGCCGCGTTCACCGGCATGCTCGCCAGTCATGGCATCGCCATCAGCATGGA
CGGTCGGGGCGCCTGGCGCGACAACGTGTTCGTCGAGCGTCTGTGGCGCAGCATCAAATACGAAGAGGTCTATCTGCGCGCCTACGACACCGTGTCCGAC
GCCCGCGCCTCGATCGGCCGATACCTCGCCTTTTACAATGGCCGGCGTCCCCACTCGAGCCTTGACGGCGGCACCCCCGATCAAGCTTACTTCAGCCCGC
TGCCGTTCCGCGCGGCAGCCTAACTCTGGCAGAAACTCCACTTATCGACGCGGAATTGCTGTTCAGATAACCGGGGCCAGCTCT
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 | |
|---|---|---|---|---|---|
| 312 bp | 103 aa | 88 | 399 | + | No |
Description :
ORF sequence :
MSRRARRQHAPAFKAKVALAAIKGEMTLAQLAEHFDVHPNQITQWKSQLQEAAAEVFGPGGGNRASESAVDVKTLHAKIGELTLENDFLEGALSKAGLLS
AKR
AKR
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 882 bp | 293 aa | 342 | 1223 | + | No |
Description :
ORF sequence :
ERFFRRRAQQSRPAERKAMIDREHDLPITKQAEVLKISRGSIYYLPRPVSPADLAIMQRLDRLHLEFPFAGSRMLRDLLAAEGCKIGRRHVKTLMRRMGI
EALYRRPRTTKPEPGHKIYPYLLRGMEITGPNQVWAMDITYIPMARGFVYLAVVLDWFSRRVLSWRVSITMEAAFCVETLEDALARHGKPDIFNTDQGSQ
FTGAAFTGMLASHGIAISMDGRGAWRDNVFVERLWRSIKYEEVYLRAYDTVSDARASIGRYLAFYNGRRPHSSLDGGTPDQAYFSPLPFRAAA
EALYRRPRTTKPEPGHKIYPYLLRGMEITGPNQVWAMDITYIPMARGFVYLAVVLDWFSRRVLSWRVSITMEAAFCVETLEDALARHGKPDIFNTDQGSQ
FTGAAFTGMLASHGIAISMDGRGAWRDNVFVERLWRSIKYEEVYLRAYDTVSDARASIGRYLAFYNGRRPHSSLDGGTPDQAYFSPLPFRAAA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1136 bp | 378 aa | 88 | 1223 | + | Yes |
Description :
ORF sequence :
MSRRARRQHAPAFKAKVALAAIKGEMTLAQLAEHFDVHPNQITQWKSQLQEAAAEVFGPGGGNRASESAVDVKTLHAKIGELTLENDFFRRRAQQSRPAE
RKAMIDREHDLPITKQAEVLKISRGSIYYLPRPVSPADLAIMQRLDRLHLEFPFAGSRMLRDLLAAEGCKIGRRHVKTLMRRMGIEALYRRPRTTKPEPG
HKIYPYLLRGMEITGPNQVWAMDITYIPMARGFVYLAVVLDWFSRRVLSWRVSITMEAAFCVETLEDALARHGKPDIFNTDQGSQFTGAAFTGMLASHGI
AISMDGRGAWRDNVFVERLWRSIKYEEVYLRAYDTVSDARASIGRYLAFYNGRRPHSSLDGGTPDQAYFSPLPFRAAA
RKAMIDREHDLPITKQAEVLKISRGSIYYLPRPVSPADLAIMQRLDRLHLEFPFAGSRMLRDLLAAEGCKIGRRHVKTLMRRMGIEALYRRPRTTKPEPG
HKIYPYLLRGMEITGPNQVWAMDITYIPMARGFVYLAVVLDWFSRRVLSWRVSITMEAAFCVETLEDALARHGKPDIFNTDQGSQFTGAAFTGMLASHGI
AISMDGRGAWRDNVFVERLWRSIKYEEVYLRAYDTVSDARASIGRYLAFYNGRRPHSSLDGGTPDQAYFSPLPFRAAA
Blast result :
Comments
ISBj3 is 82%(orfAB) aa similar to ISMex7.
The third ORF is the putative ORFAB reconstructed in silico by possible -1 frameshift.
The ISBj3 ends are not classic for this ISs family.
The third ORF is the putative ORFAB reconstructed in silico by possible -1 frameshift.
The ISBj3 ends are not classic for this ISs family.
References
1] Kaneko,T., Nakamura,Y., Sato,S., Minamisawa,K., Uchiumi,T., Sasamoto,S., Watanabe,A., Idesawa,K., Iriguchi,M., Kawashima,K., Kohara,M., Matsumoto,M., Shimpo,S., Tsuruoka,H., Wada,T., Yamada,M. and Tabata,S. (2002) DNA Res. 9 (6), 189-197.
2] Kaneko,T., Nakamura,Y., Sato,S., Minamisawa,K., Uchiumi,T., Sasamoto,S., Watanabe,A., Idesawa,K., Iriguchi,M., Kawashima,K., Kohara,M., Matsumoto,M., Shimpo,S., Tsuruoka,H., Wada,T., Yamada,M. and Tabata,S. (2002) DNA Res. 9 (6), 225-256.
2] Kaneko,T., Nakamura,Y., Sato,S., Minamisawa,K., Uchiumi,T., Sasamoto,S., Watanabe,A., Idesawa,K., Iriguchi,M., Kawashima,K., Kohara,M., Matsumoto,M., Shimpo,S., Tsuruoka,H., Wada,T., Yamada,M. and Tabata,S. (2002) DNA Res. 9 (6), 225-256.