ISDvu2
- Family IS3
- Group IS2
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_002937 | ND | Desulfovibrio vulgaris | Desulfovibrio vulgaris subsp. vulgaris Hildenborough |
DNA section
IS Length : 1311 bp
Ends
IR Length : 19/26
IRL : TGGAGTAGCCCCCAATTAGGCCGGACCTCTCTGCCAACCGAAGAGGTAGT
IRR : TGGAGTTGCCCCCGCTAAACCGGACACCCTGCGGTTGCTGACAGTCGGAT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| CGAAGGGATG | CCCCC | CTCCTGCGCT | 5 |
DNA sequence
TGGAGTAGCCCCCAATTAGGCCGGACCTCTCTGCCAACCGAAGAGGTAGTGCTAGAGGTATGTCCAGACAGAGTGCTAAAGAGATTTCCACGGTCGAGGT
CGTGACCATGGTTCAACGTCGTCGTTGGACCATTGCCGAGAAGCTACGGGTAGTTGAAGAGTCGTCTTTACCCGGAATGAGCGTCTCCTTCGTGGCTCGC
AAATACGGCATCGCTCCGAATCTTGTCTTTCGATGGAGAAAGCTCATGAGCGATGGCGGAAAAGTGGCTATTCAGGCCGACGACCGAGTGGTGAGCGTGG
CAGAGGCGAAGGCTTTGAAGAAGCGCATTCGGGATTTGGAACGGCTTCTCGGCCGAAAGACGATGGAAGTCGAAATCCTGAAGGAAGCTATCGACATTGC
ACGCGAAAAAAAACTGATCTCGCGTTCGCCGTTGCCATTCGAGGACGGTTCCCTATGAAGCGTGTAGCGGACTCCCTGCAAGTCTCCCGTTCGCGTTTGG
CAGAGCGGCTTGACGGTCCACATCGTACCAGAAAGCCTCGTTACGTGAAGGCGCAGGATGAGGAATTGCTTCGTCTCATCCGTGCCATTCTTGATGAGCG
GCAAACCTACGGCTATCGGCGGATACAGGCGTGCCTCAATGCCCATTTGAGAGCTACAGGGCAATCTGAAGTCAATCACAAGCGCGTTTACCGCATCATG
CGGATGAATGGCCTGTTGCTCACCCGTCATAACGGCAAACGTCCAGACAAGGCGCACGAAGGCAAGATTGTTACTCTGCACCGCAATACACGATGGTGTT
CTGATGGGTTTGAGATCCCATGCGATAACCGGGAGGTCGTGCGTGTCGCGTTCGTCCTCGATTCGTGCGACCGGGAAGTCATCAGCTACGTTGCGACGAC
CAGGGGCATCTCAGGCTCTATGGTCCGCGATCTGATGCTGGAAAGCGTGGAGCGCCGATTCGGCAATGCGCACACGTCCCATACAGTGGAATGGCTTTCA
GACAATGGATCTTGTTATACTGCGAAGGAAACAGTGGAGTTTGCCTCGTGGCTAGGCCTGCGAAGCTGCTTTACCCCGGTGCGCAGTCCAGAGAGCAATG
GCATGGCAGAGGCATTCGTGAAGACATTCAAGCGTGATTACGTTGACTGCAACATCTGTCCCGACGCACCGAGCGTTCTGAAGCGCCTTTCCGAGTGGTT
CGAAGACTACAACGAAAATGCTCCACACAAGGGATTACGGATGCGCTCGCCAAGACAATTCATCCGACTGTCAGCAACCGCAGGGTGTCCGGTTTAGCGG
GGGCAACTCCA
CGTGACCATGGTTCAACGTCGTCGTTGGACCATTGCCGAGAAGCTACGGGTAGTTGAAGAGTCGTCTTTACCCGGAATGAGCGTCTCCTTCGTGGCTCGC
AAATACGGCATCGCTCCGAATCTTGTCTTTCGATGGAGAAAGCTCATGAGCGATGGCGGAAAAGTGGCTATTCAGGCCGACGACCGAGTGGTGAGCGTGG
CAGAGGCGAAGGCTTTGAAGAAGCGCATTCGGGATTTGGAACGGCTTCTCGGCCGAAAGACGATGGAAGTCGAAATCCTGAAGGAAGCTATCGACATTGC
ACGCGAAAAAAAACTGATCTCGCGTTCGCCGTTGCCATTCGAGGACGGTTCCCTATGAAGCGTGTAGCGGACTCCCTGCAAGTCTCCCGTTCGCGTTTGG
CAGAGCGGCTTGACGGTCCACATCGTACCAGAAAGCCTCGTTACGTGAAGGCGCAGGATGAGGAATTGCTTCGTCTCATCCGTGCCATTCTTGATGAGCG
GCAAACCTACGGCTATCGGCGGATACAGGCGTGCCTCAATGCCCATTTGAGAGCTACAGGGCAATCTGAAGTCAATCACAAGCGCGTTTACCGCATCATG
CGGATGAATGGCCTGTTGCTCACCCGTCATAACGGCAAACGTCCAGACAAGGCGCACGAAGGCAAGATTGTTACTCTGCACCGCAATACACGATGGTGTT
CTGATGGGTTTGAGATCCCATGCGATAACCGGGAGGTCGTGCGTGTCGCGTTCGTCCTCGATTCGTGCGACCGGGAAGTCATCAGCTACGTTGCGACGAC
CAGGGGCATCTCAGGCTCTATGGTCCGCGATCTGATGCTGGAAAGCGTGGAGCGCCGATTCGGCAATGCGCACACGTCCCATACAGTGGAATGGCTTTCA
GACAATGGATCTTGTTATACTGCGAAGGAAACAGTGGAGTTTGCCTCGTGGCTAGGCCTGCGAAGCTGCTTTACCCCGGTGCGCAGTCCAGAGAGCAATG
GCATGGCAGAGGCATTCGTGAAGACATTCAAGCGTGATTACGTTGACTGCAACATCTGTCCCGACGCACCGAGCGTTCTGAAGCGCCTTTCCGAGTGGTT
CGAAGACTACAACGAAAATGCTCCACACAAGGGATTACGGATGCGCTCGCCAAGACAATTCATCCGACTGTCAGCAACCGCAGGGTGTCCGGTTTAGCGG
GGGCAACTCCA
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 | |
|---|---|---|---|---|---|
| 399 bp | 132 aa | 60 | 458 | + | No |
Description : First part of the transposase
ORF sequence :
MSRQSAKEISTVEVVTMVQRRRWTIAEKLRVVEESSLPGMSVSFVARKYGIAPNLVFRWRKLMSDGGKVAIQADDRVVSVAEAKALKKRIRDLERLLGRK
TMEVEILKEAIDIAREKKLISRSPLPFEDGSL
TMEVEILKEAIDIAREKKLISRSPLPFEDGSL
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1140 bp | 379 aa | 158 | 1297 | + | No |
Description : Second part of the transposase
ORF sequence :
RVVFTRNERLLRGSQIRHRSESCLSMEKAHERWRKSGYSGRRPSGERGRGEGFEEAHSGFGTASRPKDDGSRNPEGSYRHCTRKKTDLAFAVAIRGRFPM
KRVADSLQVSRSRLAERLDGPHRTRKPRYVKAQDEELLRLIRAILDERQTYGYRRIQACLNAHLRATGQSEVNHKRVYRIMRMNGLLLTRHNGKRPDKAH
EGKIVTLHRNTRWCSDGFEIPCDNREVVRVAFVLDSCDREVISYVATTRGISGSMVRDLMLESVERRFGNAHTSHTVEWLSDNGSCYTAKETVEFASWLG
LRSCFTPVRSPESNGMAEAFVKTFKRDYVDCNICPDAPSVLKRLSEWFEDYNENAPHKGLRMRSPRQFIRLSATAGCPV
KRVADSLQVSRSRLAERLDGPHRTRKPRYVKAQDEELLRLIRAILDERQTYGYRRIQACLNAHLRATGQSEVNHKRVYRIMRMNGLLLTRHNGKRPDKAH
EGKIVTLHRNTRWCSDGFEIPCDNREVVRVAFVLDSCDREVISYVATTRGISGSMVRDLMLESVERRFGNAHTSHTVEWLSDNGSCYTAKETVEFASWLG
LRSCFTPVRSPESNGMAEAFVKTFKRDYVDCNICPDAPSVLKRLSEWFEDYNENAPHKGLRMRSPRQFIRLSATAGCPV
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1238 bp | 412 aa | 60 | 1297 | + | Yes |
Chemistry : DDE
ORF sequence :
MSRQSAKEISTVEVVTMVQRRRWTIAEKLRVVEESSLPGMSVSFVARKYGIAPNLVFRWRKLMSDGGKVAIQADDRVVSVAEAKALKKRIRDLERLLGRK
TMEVEILKEAIDIAREKKTDLAFAVAIRGRFPMKRVADSLQVSRSRLAERLDGPHRTRKPRYVKAQDEELLRLIRAILDERQTYGYRRIQACLNAHLRAT
GQSEVNHKRVYRIMRMNGLLLTRHNGKRPDKAHEGKIVTLHRNTRWCSDGFEIPCDNREVVRVAFVLDSCDREVISYVATTRGISGSMVRDLMLESVERR
FGNAHTSHTVEWLSDNGSCYTAKETVEFASWLGLRSCFTPVRSPESNGMAEAFVKTFKRDYVDCNICPDAPSVLKRLSEWFEDYNENAPHKGLRMRSPRQ
FIRLSATAGCPV
TMEVEILKEAIDIAREKKTDLAFAVAIRGRFPMKRVADSLQVSRSRLAERLDGPHRTRKPRYVKAQDEELLRLIRAILDERQTYGYRRIQACLNAHLRAT
GQSEVNHKRVYRIMRMNGLLLTRHNGKRPDKAHEGKIVTLHRNTRWCSDGFEIPCDNREVVRVAFVLDSCDREVISYVATTRGISGSMVRDLMLESVERR
FGNAHTSHTVEWLSDNGSCYTAKETVEFASWLGLRSCFTPVRSPESNGMAEAFVKTFKRDYVDCNICPDAPSVLKRLSEWFEDYNENAPHKGLRMRSPRQ
FIRLSATAGCPV
Blast result :
Comments
ISDvu2 is 76% (ORFA) and 66% (ORFB) aa similar to IS426. The third ORF is a putative ORFAB transposase reconstructed in silico by -1 frameshift.
References
1] Heidelberg,J.F., Seshadri,R., Haveman,S.A., Hemme,C.L., Paulsen,I.T., Kolonay,J.F., Eisen,J.A., Ward,N., Methe,B., Brinkac,L.M., Daugherty,S.C., Deboy,R.T., Dodson,R.J., Durkin,A.S., Madupu,R., Nelson,W.C., Sullivan,S.A., Fouts,D., Haft,D.H., Selengut,J., Peterson,J.D., Davidsen,T.M., Zafar,N., Zhou,L., Radune,D., Dimitrov,G., Hance,M., Tran,K., Khouri,H., Gill,J., Utterback,T.R., Feldblyum,T.V., Wall,J.D., Voordouw,G. and Fraser,C.M. (2004) Nat. Biotechnol. 22 (5), 554-559 .