ISDde4
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_007519 | ND | Desulfovibrio desulfuricans | Desulfovibrio desulfuricans G20 |
DNA section
IS Length : 1189 bp
Ends
IR Length : 29/41
IRL : TGCGTAAGCTTCCCCTGAAAAGACACAGGCCAAAACTGGAGTTTTCTGAC
IRR : TTCGTAAGCTTCCCCGTCAAGAGGACAGTTGAAAAATAGAGTTTCCAGCG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| AGTTGGGG | GACATGC | 0 |
DNA sequence
TGCGTAAGCTTCCCCTGAAAAGACACAGGCCAAAACTGGAGTTTTCTGACATATCCCCGTCAGGAGACTTTCATGAAGAAATCACGATTCACTGAGACGC
AGATATTCTCGATCCTCAAAGAGGGCGAAGCCGGTATCAAAGTCAAAGACATCTGCCGCGCCCACGGTATTTCCGACGCCACCTATTATAGCTGGAAATC
CAAGTATGGAGGCATGCAGGCTTCCGATCTGAAACGGATGAAGAATATGGAGGCTGAGCTGACGCAGTTGAAGCGGATGTATGCGGACATGGCCCTCGAA
AACCGTGCTTTGAAGGATCTGATCGAAAAAAAGCTTTAAGGCCGACTGGGAAACGCGAGGCGGTCGCTTATCTGACTGTCGAGCACAATCTGTCCATACT
ACGCAGTTGCCGCTGCGTGGGCTTATCCAGGACGGCCTATTATCGGTTGCCTGCAAGTGGGAGCCGTGTTCACGAAGTCATCGAGGCGATCAACTCATTA
ATAGACAAACACCCTCGCTGGGGATTCTGGAAGTGCTTCAAGGTACTGCGTCGCAAGCATTGCTGGAACCACAAGAGGGTATATCGCGTCTACTGCGAGC
TGCGGCTGAACCTGAAGAGCCGGGCAAAGAAGCGGTTGCCTCAACGCACTAAGCAGCCGCTGTCGATCCCGGCCCAGCCCAACCTGACGTGGTCTGCCGA
CTTCATGAGCGACTCGCTTTATGCGGGGAAACGATTTCGAACCTTCAACGTTATTGACGACTTCAACCGCGAACTGCTGCACGTCGAAATTGACACCTCC
ATTACCGGAAGGCGGTTAATCCGAGTGTTTGAACGGCTACGCTTGGAACGAGGCCTTCCCCAAGTGCTGAGGACGGACAACGGACCGGAATTCCTTTCCG
GTGAGTTTGTAGCCTGGGCCGAGTCGGCAGGAATGAGCATCCAATATATTCAACCCGGAGAACCTAATCAGAACGCGTACATTGAACGGTTCAACCGGAC
ATATCGCACCGAAGTGCTTGATCTCTATCTCTTCAGGACTCTGAATGAGGTCCGGGAGATCACCCACTGGTGGAAGATTGAATACAACGAACAGCGGCCC
CATGACTCTCTCGGGGACCTGACACCCTCCGAGTTTTTATCCAACAACGCTGGAAACTCTATTTTTCAACTGTCCTCTTGACGGGGAAGCTTACGAA
AGATATTCTCGATCCTCAAAGAGGGCGAAGCCGGTATCAAAGTCAAAGACATCTGCCGCGCCCACGGTATTTCCGACGCCACCTATTATAGCTGGAAATC
CAAGTATGGAGGCATGCAGGCTTCCGATCTGAAACGGATGAAGAATATGGAGGCTGAGCTGACGCAGTTGAAGCGGATGTATGCGGACATGGCCCTCGAA
AACCGTGCTTTGAAGGATCTGATCGAAAAAAAGCTTTAAGGCCGACTGGGAAACGCGAGGCGGTCGCTTATCTGACTGTCGAGCACAATCTGTCCATACT
ACGCAGTTGCCGCTGCGTGGGCTTATCCAGGACGGCCTATTATCGGTTGCCTGCAAGTGGGAGCCGTGTTCACGAAGTCATCGAGGCGATCAACTCATTA
ATAGACAAACACCCTCGCTGGGGATTCTGGAAGTGCTTCAAGGTACTGCGTCGCAAGCATTGCTGGAACCACAAGAGGGTATATCGCGTCTACTGCGAGC
TGCGGCTGAACCTGAAGAGCCGGGCAAAGAAGCGGTTGCCTCAACGCACTAAGCAGCCGCTGTCGATCCCGGCCCAGCCCAACCTGACGTGGTCTGCCGA
CTTCATGAGCGACTCGCTTTATGCGGGGAAACGATTTCGAACCTTCAACGTTATTGACGACTTCAACCGCGAACTGCTGCACGTCGAAATTGACACCTCC
ATTACCGGAAGGCGGTTAATCCGAGTGTTTGAACGGCTACGCTTGGAACGAGGCCTTCCCCAAGTGCTGAGGACGGACAACGGACCGGAATTCCTTTCCG
GTGAGTTTGTAGCCTGGGCCGAGTCGGCAGGAATGAGCATCCAATATATTCAACCCGGAGAACCTAATCAGAACGCGTACATTGAACGGTTCAACCGGAC
ATATCGCACCGAAGTGCTTGATCTCTATCTCTTCAGGACTCTGAATGAGGTCCGGGAGATCACCCACTGGTGGAAGATTGAATACAACGAACAGCGGCCC
CATGACTCTCTCGGGGACCTGACACCCTCCGAGTTTTTATCCAACAACGCTGGAAACTCTATTTTTCAACTGTCCTCTTGACGGGGAAGCTTACGAA
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 | |
|---|---|---|---|---|---|
| 267 bp | 88 aa | 73 | 339 | + | No |
Description : First part of the transposase
ORF sequence :
MKKSRFTETQIFSILKEGEAGIKVKDICRAHGISDATYYSWKSKYGGMQASDLKRMKNMEAELTQLKRMYADMALENRALKDLIEKKL
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 924 bp | 307 aa | 258 | 1181 | + | No |
Description : Second part of the transposase
ORF sequence :
ADAVEADVCGHGPRKPCFEGSDRKKALRPTGKREAVAYLTVEHNLSILRSCRCVGLSRTAYYRLPASGSRVHEVIEAINSLIDKHPRWGFWKCFKVLRRK
HCWNHKRVYRVYCELRLNLKSRAKKRLPQRTKQPLSIPAQPNLTWSADFMSDSLYAGKRFRTFNVIDDFNRELLHVEIDTSITGRRLIRVFERLRLERGL
PQVLRTDNGPEFLSGEFVAWAESAGMSIQYIQPGEPNQNAYIERFNRTYRTEVLDLYLFRTLNEVREITHWWKIEYNEQRPHDSLGDLTPSEFLSNNAGN
SIFQLSS
HCWNHKRVYRVYCELRLNLKSRAKKRLPQRTKQPLSIPAQPNLTWSADFMSDSLYAGKRFRTFNVIDDFNRELLHVEIDTSITGRRLIRVFERLRLERGL
PQVLRTDNGPEFLSGEFVAWAESAGMSIQYIQPGEPNQNAYIERFNRTYRTEVLDLYLFRTLNEVREITHWWKIEYNEQRPHDSLGDLTPSEFLSNNAGN
SIFQLSS
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1109 bp | 369 aa | 73 | 1181 | + | Yes |
Chemistry : DDE
ORF sequence :
MKKSRFTETQIFSILKEGEAGIKVKDICRAHGISDATYYSWKSKYGGMQASDLKRMKNMEAELTQLKRMYADMALENRALKDLIEKKALRPTGKREAVAY
LTVEHNLSILRSCRCVGLSRTAYYRLPASGSRVHEVIEAINSLIDKHPRWGFWKCFKVLRRKHCWNHKRVYRVYCELRLNLKSRAKKRLPQRTKQPLSIP
AQPNLTWSADFMSDSLYAGKRFRTFNVIDDFNRELLHVEIDTSITGRRLIRVFERLRLERGLPQVLRTDNGPEFLSGEFVAWAESAGMSIQYIQPGEPNQ
NAYIERFNRTYRTEVLDLYLFRTLNEVREITHWWKIEYNEQRPHDSLGDLTPSEFLSNNAGNSIFQLSS
LTVEHNLSILRSCRCVGLSRTAYYRLPASGSRVHEVIEAINSLIDKHPRWGFWKCFKVLRRKHCWNHKRVYRVYCELRLNLKSRAKKRLPQRTKQPLSIP
AQPNLTWSADFMSDSLYAGKRFRTFNVIDDFNRELLHVEIDTSITGRRLIRVFERLRLERGLPQVLRTDNGPEFLSGEFVAWAESAGMSIQYIQPGEPNQ
NAYIERFNRTYRTEVLDLYLFRTLNEVREITHWWKIEYNEQRPHDSLGDLTPSEFLSNNAGNSIFQLSS
Blast result :
Comments
ISDde4 is 88 % (ORFA) aa similar to ISLpn8 and 70% (ORFB) aa similar to ISD1 . The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina,T., Hammon,N., Israni,S., Pitluck,S., Goodwin,L.A., Schmutz,J., Larimer,F., Land,M., Kyrpides,N., Ivanova,N. and Richardson,P.(2005) Direct submission GenBank.