ISSoc13
- Family IS5
- Group IS427
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_007776 | ND | Synechococcus sp. | Synechococcus sp. JA-2-3B |
DNA section
IS Length : 811 bp
Ends
IR Length : 18/22
IRL : GGTCGTGTTGATCTTATGTTAGGATAGAGGGAATAATTTATAGAGGAAAG
IRR : GGTTGTGTTGATCTTTCATTTGAGCCAAAAGAGAGCACTGACGAGATAGA
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CTGGGGGTGC | TA | GGCGGCAGAG | 2 |
CTCACCCCCG | TA | GTTTGGAATG | 2 |
AGGGGATCCC | TA | GAGCTTGCGG | 2 |
CGAGCCAGCC | TA | GCTAAAAAAG | 2 |
CTTCCAGTTC | TA | GAAGACTTGA | 2 |
TTGGCGGGAC | TA | GCATTGGATC | 2 |
CAGGCCGTCT | TA | GTGATCCCCT | 2 |
CACAGAGGAC | TA | GGAAGGAGGG | 2 |
GACTTGCTCT | TA | GGTACCTTGC | 2 |
CTAGCTTTCT | TA | GGACTCCGTC | 2 |
CGCCACTCTC | TA | GGCTTGCACA | 2 |
CTCTGAGGGC | TA | GGGCCCCGAT | 2 |
TGTCTCAATC | TA | GTTTCAAATG | 2 |
TTGTGAGAGT | TA | ATCTTATTTG | 2 |
CACAAAATCC | TA | AGGGATCCCT | 2 |
AGGAGGGAGC | TA | AAAAGATAAT | 2 |
GGTGCAGTTG | GG | TGCAGTTGGG | 2 |
DNA sequence
GGTCGTGTTGATCTTATGTTAGGATAGAGGGAATAATTTATAGAGGAAAGAGGATGAAGTTGGTTTTTTTAGATGAAAACAAATGGCAGAAGATATTGGC
TTTTTTACAGACAGAAGAGAGAGTTAACATTGGGAAAGAAGCAAACTGCAAGCAGTTTATTGAAGCAGTTCTTTGGATAGCCCGTTCCGGTGCTCCTTGG
CGCTACCTCCCAGAAGGATATGGCAAATGGTACACCATCTATCAAAGATTCCACCGGTGGAGTCGTTTTGGAGTGTGGGAACGGATGTTCAAGTATTTTA
TTGACGACCCTGATTTAGAGCATCTCATTATTGATTCAACCATGGTTCGAGCGCACTCCTGTGCTGCCGGAAAAAAGGGGAGCAAGCTTTGGGGAGAAGC
CGAGGCGGATACAGCACCAAGATTCATGTGAGTGTAGATGGGTTGGGAAATCCGCTGGAATTGAGAATAACTGGCGGAGAAAAGAGCGATATTACTCAAG
GGGAAGAATTGATAGAGGGCTGGCAGAGAAAGGATACCAAAGTAATTGGGGATAAAGGATATGATGCGGATAAGTTGATTGAGAAGATAGGGGAAGCTCA
AGCGGTTATTCCGCCTAAAAGGAATAGAAAGACGCAGCGGCATTATGACAAGCATCTGTATAAAGAGAGGCATTTAATCGAATGCTTTTTTCATAAGTTA
AAGCAGTACCGGCATCTATTTTCTCGTTTTGACAAATTGGCCAGGAACTTCTTGAGTTTTCTCTATCTCGTCAGTGCTCTCTTTTGGCTCAAATGAAAGA
TCAACACAACC
TTTTTTACAGACAGAAGAGAGAGTTAACATTGGGAAAGAAGCAAACTGCAAGCAGTTTATTGAAGCAGTTCTTTGGATAGCCCGTTCCGGTGCTCCTTGG
CGCTACCTCCCAGAAGGATATGGCAAATGGTACACCATCTATCAAAGATTCCACCGGTGGAGTCGTTTTGGAGTGTGGGAACGGATGTTCAAGTATTTTA
TTGACGACCCTGATTTAGAGCATCTCATTATTGATTCAACCATGGTTCGAGCGCACTCCTGTGCTGCCGGAAAAAAGGGGAGCAAGCTTTGGGGAGAAGC
CGAGGCGGATACAGCACCAAGATTCATGTGAGTGTAGATGGGTTGGGAAATCCGCTGGAATTGAGAATAACTGGCGGAGAAAAGAGCGATATTACTCAAG
GGGAAGAATTGATAGAGGGCTGGCAGAGAAAGGATACCAAAGTAATTGGGGATAAAGGATATGATGCGGATAAGTTGATTGAGAAGATAGGGGAAGCTCA
AGCGGTTATTCCGCCTAAAAGGAATAGAAAGACGCAGCGGCATTATGACAAGCATCTGTATAAAGAGAGGCATTTAATCGAATGCTTTTTTCATAAGTTA
AAGCAGTACCGGCATCTATTTTCTCGTTTTGACAAATTGGCCAGGAACTTCTTGAGTTTTCTCTATCTCGTCAGTGCTCTCTTTTGGCTCAAATGAAAGA
TCAACACAACC
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 | |
---|---|---|---|---|---|
378 bp | 125 aa | 54 | 431 | + | No |
Description : First part of the transposase
ORF sequence :
MKLVFLDENKWQKILAFLQTEERVNIGKEANCKQFIEAVLWIARSGAPWRYLPEGYGKWYTIYQRFHRWSRFGVWERMFKYFIDDPDLEHLIIDSTMVRA
HSCAAGKKGSKLWGEAEADTAPRFM
HSCAAGKKGSKLWGEAEADTAPRFM
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
462 bp | 153 aa | 335 | 796 | + | No |
Description : Second part of the transposase
ORF sequence :
FNHGSSALLCCRKKGEQALGRSRGGYSTKIHVSVDGLGNPLELRITGGEKSDITQGEELIEGWQRKDTKVIGDKGYDADKLIEKIGEAQAVIPPKRNRKT
QRHYDKHLYKERHLIECFFHKLKQYRHLFSRFDKLARNFLSFLYLVSALFWLK
QRHYDKHLYKERHLIECFFHKLKQYRHLFSRFDKLARNFLSFLYLVSALFWLK
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
743 bp | 247 aa | 54 | 796 | + | Yes |
Chemistry : DDE
ORF sequence :
MKLVFLDENKWQKILAFLQTEERVNIGKEANCKQFIEAVLWIARSGAPWRYLPEGYGKWYTIYQRFHRWSRFGVWERMFKYFIDDPDLEHLIIDSTMVRA
HSCAAGKKGEQALGRSRGGYSTKIHVSVDGLGNPLELRITGGEKSDITQGEELIEGWQRKDTKVIGDKGYDADKLIEKIGEAQAVIPPKRNRKTQRHYDK
HLYKERHLIECFFHKLKQYRHLFSRFDKLARNFLSFLYLVSALFWLK
HSCAAGKKGEQALGRSRGGYSTKIHVSVDGLGNPLELRITGGEKSDITQGEELIEGWQRKDTKVIGDKGYDADKLIEKIGEAQAVIPPKRNRKTQRHYDK
HLYKERHLIECFFHKLKQYRHLFSRFDKLARNFLSFLYLVSALFWLK
Blast result :
Comments
ISSoc13 is 65% aa similar to ISCc1.The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Allewalt,J.P., Bateson,M.M., Revsbech,N.P., Slack,K. and Ward,D.M.(2006)Appl. Environ. Microbiol 72 (1), 544-550.
2] Bateson,M.M. and Ward,D.M. (2006) Direct Submission GenBank.
3] Heidelberg,J.(2005) Direct Submission GenBank.
2] Bateson,M.M. and Ward,D.M. (2006) Direct Submission GenBank.
3] Heidelberg,J.(2005) Direct Submission GenBank.