ISDba1
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_013173 | ND | Desulfomicrobium baculatum | Desulfomicrobium baculatum DSM 4028 |
DNA section
IS Length : 1207 bp
Ends
IR Length : 16/18
IRL : TGACCTGCCCGGCACTTTTCAGACCAGTCGAAACTTGAGATAGGTTCCCC
IRR : TGACCTGCCGGGAAACTTCGGACCACTCAATTCTTGAGAGTTTCCCCACG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TACATGAGTC | ACCC | CGCTCTTGCC | 4 |
| CGCCCGATCC | GCGAGCGAAT | 0 | |
| TTTACAAAGC | GCAC | CAGTTGAAAC | 4 |
| CGAACGCAGG | GCGTCAAGAC | 0 | |
| GGTATTCACG | TCTT | CCCGGGCAAA | 4 |
| AGATCTGGTG | GTTA | TTCCAACCCT | 4 |
DNA sequence
TGACCTGCCCGGCACTTTTCAGACCAGTCGAAACTTGAGATAGGTTCCCCCTCAACCACGAGGGAACTGATGAAAAAGGGACGATTTTCCGAAGAGCAGA
TGGTGGGCATCCTGCGCGAAGCTGACCGCAGTCCGGTGGCCCAGGTGGCCAAGAAGCATGGAATCAGCGAGCAGACGATCTATACGTGGCGACAGCGGTT
TGCCGGCATGTCCGCCGATGACGTGAAGCGGCTGCGGTTGCTGGAACAAGAGAACACGCGACTGAAGAAGATCCTTGCGGAACGGGACCTCGAAATCGAG
GTCATGAAGGAGATCGCCGCAAAAAAGTGGTAGGCGCACCCGCCCGACGCCTCCAGGTGGCATACGCCAGGAGTCGCGGACTTTCACAACGCAGGGCGTG
TGCGCTGTTATCCACTTCCCGGTCGTCGCTCCACTACGAGTCACGGCTGGAGGCCCGGGACAAGCCACTGATGGCGGCTATGACAGATCTGGCTGCGACG
TATCCGCGCTTTGGATATCGCCGGATCAACGTGTTCATGGAGCGTCTGGGGCATGTCATGGGCGCCGACAAGGCGTTCCGCCTGTGGTCCAAGGCCGGGT
TACAGGTGCCCAGGAAGCGGCCTCGGAAACGAGTGGCGGCGTCCCGCCCGAGACCGCAACTGCCGATGGGAGCAAACGAACTGTGGGCGTACGACTTTGT
CTATGACGCCTGCGCCAATGGTCAGCAGATCAAATGCCTGACTGTGGTAGACGAATACACGCGGGAATGCCTGGCTATAGACGTTGCCGGCAGCATCAGA
TCGGGCCGGGTGATCGAGGTGCTGTCCCGCCTGATCAGCGAACGTGGAGCCCCTCTGAGCCTGCGTTCTGACAACGGACCGGAGTTCGTGTCGAAGGCGC
TGCTCAGATGGGCGGCTCAGGAGTCTCTGGATCTGGCGCTGATTGAGCCTGGGAAGCCATGGCAGAACGGTTTGAACGAGAGTTTTAACGGCAAATTTCG
CGATGAGTGTCTGTCGATGGAATGGTTCCGGTGTCGGTCCGAGGCGCGGGTTGTGATCGAGGAATGGAGGCGGCACTACAACTCCATTCGTCCGCATTCA
AGCCTGAACAACATGACGCCAGAACATTTCTGTCGGCAGTATGGGAAAAACCTGAACCGTGGGGAAACTCTCAAGAATTGAGTGGTCCGAAGTTTCCCGG
CAGGTCA
TGGTGGGCATCCTGCGCGAAGCTGACCGCAGTCCGGTGGCCCAGGTGGCCAAGAAGCATGGAATCAGCGAGCAGACGATCTATACGTGGCGACAGCGGTT
TGCCGGCATGTCCGCCGATGACGTGAAGCGGCTGCGGTTGCTGGAACAAGAGAACACGCGACTGAAGAAGATCCTTGCGGAACGGGACCTCGAAATCGAG
GTCATGAAGGAGATCGCCGCAAAAAAGTGGTAGGCGCACCCGCCCGACGCCTCCAGGTGGCATACGCCAGGAGTCGCGGACTTTCACAACGCAGGGCGTG
TGCGCTGTTATCCACTTCCCGGTCGTCGCTCCACTACGAGTCACGGCTGGAGGCCCGGGACAAGCCACTGATGGCGGCTATGACAGATCTGGCTGCGACG
TATCCGCGCTTTGGATATCGCCGGATCAACGTGTTCATGGAGCGTCTGGGGCATGTCATGGGCGCCGACAAGGCGTTCCGCCTGTGGTCCAAGGCCGGGT
TACAGGTGCCCAGGAAGCGGCCTCGGAAACGAGTGGCGGCGTCCCGCCCGAGACCGCAACTGCCGATGGGAGCAAACGAACTGTGGGCGTACGACTTTGT
CTATGACGCCTGCGCCAATGGTCAGCAGATCAAATGCCTGACTGTGGTAGACGAATACACGCGGGAATGCCTGGCTATAGACGTTGCCGGCAGCATCAGA
TCGGGCCGGGTGATCGAGGTGCTGTCCCGCCTGATCAGCGAACGTGGAGCCCCTCTGAGCCTGCGTTCTGACAACGGACCGGAGTTCGTGTCGAAGGCGC
TGCTCAGATGGGCGGCTCAGGAGTCTCTGGATCTGGCGCTGATTGAGCCTGGGAAGCCATGGCAGAACGGTTTGAACGAGAGTTTTAACGGCAAATTTCG
CGATGAGTGTCTGTCGATGGAATGGTTCCGGTGTCGGTCCGAGGCGCGGGTTGTGATCGAGGAATGGAGGCGGCACTACAACTCCATTCGTCCGCATTCA
AGCCTGAACAACATGACGCCAGAACATTTCTGTCGGCAGTATGGGAAAAACCTGAACCGTGGGGAAACTCTCAAGAATTGAGTGGTCCGAAGTTTCCCGG
CAGGTCA
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 | |
|---|---|---|---|---|---|
| 264 bp | 87 aa | 70 | 333 | + | No |
Description : First part of the transposase
ORF sequence :
MKKGRFSEEQMVGILREADRSPVAQVAKKHGISEQTIYTWRQRFAGMSADDVKRLRLLEQENTRLKKILAERDLEIEVMKEIAAKKW
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 960 bp | 319 aa | 222 | 1181 | + | No |
Description : Second part of the transposase
ORF sequence :
REAAAVAGTREHATEEDPCGTGPRNRGHEGDRRKKVVGAPARRLQVAYARSRGLSQRRACALLSTSRSSLHYESRLEARDKPLMAAMTDLAATYPRFGYR
RINVFMERLGHVMGADKAFRLWSKAGLQVPRKRPRKRVAASRPRPQLPMGANELWAYDFVYDACANGQQIKCLTVVDEYTRECLAIDVAGSIRSGRVIEV
LSRLISERGAPLSLRSDNGPEFVSKALLRWAAQESLDLALIEPGKPWQNGLNESFNGKFRDECLSMEWFRCRSEARVVIEEWRRHYNSIRPHSSLNNMTP
EHFCRQYGKNLNRGETLKN
RINVFMERLGHVMGADKAFRLWSKAGLQVPRKRPRKRVAASRPRPQLPMGANELWAYDFVYDACANGQQIKCLTVVDEYTRECLAIDVAGSIRSGRVIEV
LSRLISERGAPLSLRSDNGPEFVSKALLRWAAQESLDLALIEPGKPWQNGLNESFNGKFRDECLSMEWFRCRSEARVVIEEWRRHYNSIRPHSSLNNMTP
EHFCRQYGKNLNRGETLKN
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1112 bp | 370 aa | 70 | 1181 | + | Yes |
Chemistry : DDE
ORF sequence :
MKKGRFSEEQMVGILREADRSPVAQVAKKHGISEQTIYTWRQRFAGMSADDVKRLRLLEQENTRLKKILAERDLEIEVMKEIAAKKVVGAPARRLQVAYA
RSRGLSQRRACALLSTSRSSLHYESRLEARDKPLMAAMTDLAATYPRFGYRRINVFMERLGHVMGADKAFRLWSKAGLQVPRKRPRKRVAASRPRPQLPM
GANELWAYDFVYDACANGQQIKCLTVVDEYTRECLAIDVAGSIRSGRVIEVLSRLISERGAPLSLRSDNGPEFVSKALLRWAAQESLDLALIEPGKPWQN
GLNESFNGKFRDECLSMEWFRCRSEARVVIEEWRRHYNSIRPHSSLNNMTPEHFCRQYGKNLNRGETLKN
RSRGLSQRRACALLSTSRSSLHYESRLEARDKPLMAAMTDLAATYPRFGYRRINVFMERLGHVMGADKAFRLWSKAGLQVPRKRPRKRVAASRPRPQLPM
GANELWAYDFVYDACANGQQIKCLTVVDEYTRECLAIDVAGSIRSGRVIEVLSRLISERGAPLSLRSDNGPEFVSKALLRWAAQESLDLALIEPGKPWQN
GLNESFNGKFRDECLSMEWFRCRSEARVVIEEWRRHYNSIRPHSSLNNMTPEHFCRQYGKNLNRGETLKN
Blast result :
Comments
ISDba1 is 86% aa similar to ISBp1.
References
1] ISfinder annotation (2010)
2] Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Kyrpides,N., Mavromatis,K., Ivanova,N., Sims,D., Lu,M., Meincke,L., Brettin,T., Detter,J.C., Han,C., Larimer,F., Land,M., Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T., Wu,D., Spring,S., Klenk,H.-P. and Eisen,J.A. (2009) Direct submission GenBank.
2] Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Kyrpides,N., Mavromatis,K., Ivanova,N., Sims,D., Lu,M., Meincke,L., Brettin,T., Detter,J.C., Han,C., Larimer,F., Land,M., Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T., Wu,D., Spring,S., Klenk,H.-P. and Eisen,J.A. (2009) Direct submission GenBank.