ISCb4
- Family IS3
- Group IS150
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_009617 | ND | Clostridium beijerinckii | Clostridium beijerinckii NCIMB 8052 |
DNA section
IS Length : 1458 bp
Ends
IR Length : 23/32
IRL : TGTACCCTATAGAGTAGACAATATAAAAAAAGTCTACCCTATAGAGTTTT
IRR : TGTATCCTTTGTCAAGGACAATTTAAAAAAAGATAGACTAATTTAAAAGA
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TAGTGTAAAA | TTTTAGTGGA | 0 |
DNA sequence
TGTACCCTATAGAGTAGACAATATAAAAAAAGTCTACCCTATAGAGTTTTTCTATTTATAATAAGATTATAGAGTTAGGAGTGAATACAAATGAGTAAGA
AATTTTTTTCAAATGAGGAGATAAATATACTTTCTAAAAATAAATATGTTAAAAGAGTTAGTGAAAAAGGAATTACATATACAGATGAATTTGAAAGACT
ATTTATTGCTGAAAATGAAAAAGGTAAATTTCCCAGAGAGATATTTGAAGAATGTGGTTTTGATATTAATATAATTGGTTTAAAAAGAATACAATCATCT
GGTGGTAGATGGCGCTCCGCATTTCGAAGAAATGGTGTTGAACAATTACAAGATACTAGAAAATATAATACTGGCAGACCAAGTGAAAAAGACTTATCTT
TAGAGGAAAAGTATGAGAAGCTACAAGCAAAACTAAAACTTCTACAAGCTGAAAATGAACTTCTAAAAAAGTTAGAAATGTTAGAAAGGAGTGTGGAAAA
GAAGAAATAGCAGTGTCATCAAGTGAAAAATTCAAAATTGTAAAATATATTATTGAGAAGTACAAATTTAAAAATATGCTTAGTTATATGTGTAAGATTT
CAGGCGTTTCACGTTCGGGATATTATAGATATTTTTCATCTATAATTGTGAAAAGTCGCGAATCTAACGAAGTTAGAGATTTAGAAATCAAAGAAAATAT
TTTAAAAGCCTATTATTTTAAGAGGCGTAAAAAGGGCGCTAGACAAATTAAAATGACCCTGAACAATCATTTTAACATAAATTATAATTTAAAACGTATA
AGAAGGATAATGAAAAAATATGAAATTACTTGCCCTCATAGAAAAGCTAATCCTTATAGAAGAATGATGAAAGCCACAAAGGAACATACAGTCTTACCAA
ACTTGTTAAATAGAGAATTCAAGCAAAAATCTCCTGGCAAAGTATTGCTAACGGATATATCTTATCTATTTTTCAAAAATGGTCAGAAGGCTTATTTATC
GACTATTTTAGATGCTTCGACTAATGAGGTTTTAGCTCATAATGTTTCAAAAAGCTTAAAAATAGATATAGTAACTAATACAATAGATAAGCTAATACAA
AATAACAAGAATATTCTTAGAAAAGATTTATTTATTCATTCAGATCAAGGAGTACATTATACCAGCCCAATTTTTCAAAATAAAGTTAAAAAGAATAAGT
TAGGACAATCTATGTCTAGGCGTGGAAACTGTTGGGATAACGCCCCACAGGAATCATTCTTTGGACATTTAAAGGATGAAGTTGATATAAAAACTTGTGA
AATATTTGAGGATCTAGTTAAAGAAATAGATGATTATATAGATTATTATAATAACTTTAGAGGGCAGTGGAACTTAAAAAAGATGACTCCCGTTAAATAC
AGAAATCATCTTTTAAATTAGTCTATCTTTTTTTAAATTGTCCTTGACAAAGGATACA
AATTTTTTTCAAATGAGGAGATAAATATACTTTCTAAAAATAAATATGTTAAAAGAGTTAGTGAAAAAGGAATTACATATACAGATGAATTTGAAAGACT
ATTTATTGCTGAAAATGAAAAAGGTAAATTTCCCAGAGAGATATTTGAAGAATGTGGTTTTGATATTAATATAATTGGTTTAAAAAGAATACAATCATCT
GGTGGTAGATGGCGCTCCGCATTTCGAAGAAATGGTGTTGAACAATTACAAGATACTAGAAAATATAATACTGGCAGACCAAGTGAAAAAGACTTATCTT
TAGAGGAAAAGTATGAGAAGCTACAAGCAAAACTAAAACTTCTACAAGCTGAAAATGAACTTCTAAAAAAGTTAGAAATGTTAGAAAGGAGTGTGGAAAA
GAAGAAATAGCAGTGTCATCAAGTGAAAAATTCAAAATTGTAAAATATATTATTGAGAAGTACAAATTTAAAAATATGCTTAGTTATATGTGTAAGATTT
CAGGCGTTTCACGTTCGGGATATTATAGATATTTTTCATCTATAATTGTGAAAAGTCGCGAATCTAACGAAGTTAGAGATTTAGAAATCAAAGAAAATAT
TTTAAAAGCCTATTATTTTAAGAGGCGTAAAAAGGGCGCTAGACAAATTAAAATGACCCTGAACAATCATTTTAACATAAATTATAATTTAAAACGTATA
AGAAGGATAATGAAAAAATATGAAATTACTTGCCCTCATAGAAAAGCTAATCCTTATAGAAGAATGATGAAAGCCACAAAGGAACATACAGTCTTACCAA
ACTTGTTAAATAGAGAATTCAAGCAAAAATCTCCTGGCAAAGTATTGCTAACGGATATATCTTATCTATTTTTCAAAAATGGTCAGAAGGCTTATTTATC
GACTATTTTAGATGCTTCGACTAATGAGGTTTTAGCTCATAATGTTTCAAAAAGCTTAAAAATAGATATAGTAACTAATACAATAGATAAGCTAATACAA
AATAACAAGAATATTCTTAGAAAAGATTTATTTATTCATTCAGATCAAGGAGTACATTATACCAGCCCAATTTTTCAAAATAAAGTTAAAAAGAATAAGT
TAGGACAATCTATGTCTAGGCGTGGAAACTGTTGGGATAACGCCCCACAGGAATCATTCTTTGGACATTTAAAGGATGAAGTTGATATAAAAACTTGTGA
AATATTTGAGGATCTAGTTAAAGAAATAGATGATTATATAGATTATTATAATAACTTTAGAGGGCAGTGGAACTTAAAAAAGATGACTCCCGTTAAATAC
AGAAATCATCTTTTAAATTAGTCTATCTTTTTTTAAATTGTCCTTGACAAAGGATACA
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 | |
|---|---|---|---|---|---|
| 420 bp | 139 aa | 91 | 510 | + | No |
Description : First part of the transposase
ORF sequence :
MSKKFFSNEEINILSKNKYVKRVSEKGITYTDEFERLFIAENEKGKFPREIFEECGFDINIIGLKRIQSSGGRWRSAFRRNGVEQLQDTRKYNTGRPSEK
DLSLEEKYEKLQAKLKLLQAENELLKKLEMLERSVEKKK
DLSLEEKYEKLQAKLKLLQAENELLKKLEMLERSVEKKK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 963 bp | 320 aa | 459 | 1421 | + | No |
Description : Second part of the transposase
ORF sequence :
TSKKVRNVRKECGKEEIAVSSSEKFKIVKYIIEKYKFKNMLSYMCKISGVSRSGYYRYFSSIIVKSRESNEVRDLEIKENILKAYYFKRRKKGARQIKMT
LNNHFNINYNLKRIRRIMKKYEITCPHRKANPYRRMMKATKEHTVLPNLLNREFKQKSPGKVLLTDISYLFFKNGQKAYLSTILDASTNEVLAHNVSKSL
KIDIVTNTIDKLIQNNKNILRKDLFIHSDQGVHYTSPIFQNKVKKNKLGQSMSRRGNCWDNAPQESFFGHLKDEVDIKTCEIFEDLVKEIDDYIDYYNNF
RGQWNLKKMTPVKYRNHLLN
LNNHFNINYNLKRIRRIMKKYEITCPHRKANPYRRMMKATKEHTVLPNLLNREFKQKSPGKVLLTDISYLFFKNGQKAYLSTILDASTNEVLAHNVSKSL
KIDIVTNTIDKLIQNNKNILRKDLFIHSDQGVHYTSPIFQNKVKKNKLGQSMSRRGNCWDNAPQESFFGHLKDEVDIKTCEIFEDLVKEIDDYIDYYNNF
RGQWNLKKMTPVKYRNHLLN
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1331 bp | 443 aa | 91 | 1421 | + | Yes |
Chemistry : DDE
ORF sequence :
MSKKFFSNEEINILSKNKYVKRVSEKGITYTDEFERLFIAENEKGKFPREIFEECGFDINIIGLKRIQSSGGRWRSAFRRNGVEQLQDTRKYNTGRPSEK
DLSLEEKYEKLQAKLKLLQAENELLKKVRNVRKECGKEEIAVSSSEKFKIVKYIIEKYKFKNMLSYMCKISGVSRSGYYRYFSSIIVKSRESNEVRDLEI
KENILKAYYFKRRKKGARQIKMTLNNHFNINYNLKRIRRIMKKYEITCPHRKANPYRRMMKATKEHTVLPNLLNREFKQKSPGKVLLTDISYLFFKNGQK
AYLSTILDASTNEVLAHNVSKSLKIDIVTNTIDKLIQNNKNILRKDLFIHSDQGVHYTSPIFQNKVKKNKLGQSMSRRGNCWDNAPQESFFGHLKDEVDI
KTCEIFEDLVKEIDDYIDYYNNFRGQWNLKKMTPVKYRNHLLN
DLSLEEKYEKLQAKLKLLQAENELLKKVRNVRKECGKEEIAVSSSEKFKIVKYIIEKYKFKNMLSYMCKISGVSRSGYYRYFSSIIVKSRESNEVRDLEI
KENILKAYYFKRRKKGARQIKMTLNNHFNINYNLKRIRRIMKKYEITCPHRKANPYRRMMKATKEHTVLPNLLNREFKQKSPGKVLLTDISYLFFKNGQK
AYLSTILDASTNEVLAHNVSKSLKIDIVTNTIDKLIQNNKNILRKDLFIHSDQGVHYTSPIFQNKVKKNKLGQSMSRRGNCWDNAPQESFFGHLKDEVDI
KTCEIFEDLVKEIDDYIDYYNNFRGQWNLKKMTPVKYRNHLLN
Blast result :
Comments
ISCb4 is 90% (ORFA) aa similar to ISClte1 and 84% (ORFB)aa similar to ISCpe6.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
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 del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Sims,D., Brettin,T., Bruce,D., Tapia,R., Brainard,J., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Bennet,G., Cann,I., Chen,J.-S., Contreras,A.L., Jones,D., Kashket,E., Mitchell,W., Stoddard,S., Schwarz,W., Qureshi,N., Young,M., Shi,Z., Ezeji,T., White,B., Blaschek,H. and Richardson,P.(2007) Direct submission GenBank