ISPye1
- Family IS5
- Group IS427
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| CP020442 | ND | Paracoccus yeei | Paracoccus yeei Paracoccus yeei FDAARGOS_252 |
DNA section
IS Length : 866 bp
Ends
IR Length : 19/22
IRL : GAGCGCGTTTCAAAACCGCTTGCGGGCGGATTCCTTCTGTCAGATTAGTG
IRR : GAGCGTGTTTCAAAACCATTTGGTCAGGGCTCTGAAGCAGATGATGGCGC
Comments : For some of the copies we identified empty insertion sites in other strains, which enabled precisely defining ends and DR's.
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| cttcctgcgc | TTA | gtaacggcgc | 3 |
| tgaggctctc | TTA | gtcgacccca | 3 |
| gaagatctag | TTA | gttcgtctac | 3 |
| tccatcttct | TTA | gcaacgtcgc | 3 |
| ccggcttgac | TAA | gcccaagggc | 3 |
| ctcgccttaa | ttaagatcct | 0 | |
| gatggcaggt | TTA | gtggcgaact | 3 |
| cgggggcagc | TAA | gcctccgccc | 3 |
| acgcctgaac | TTA | aggccgccat | 3 |
| gttccgcggt | TAA | gtcgaaacgg | 3 |
| cactgcagcc | TAA | agaagggaag | 3 |
| tggaggtgct | TTA | ctgcaccagc | 3 |
| gcataggaca | TTA | ggactctccg | 3 |
| atgacgtggc | TAA | acctacaaga | 3 |
| ccgcagggtc | TTA | atactgtcgg | 3 |
DNA sequence
GAGCGCGTTTCAAAACCGCTTGCGGGCGGATTCCTTCTGTCAGATTAGTGGGTTATGTCTACCTCGCTTGTCTCTGATGGCCTTTGGGCCATGATCGAAC
CCTTGCTGCCACCCATATCTCTGTCCTCGAAAGGCGGGCGGCCTCGGATATCGGACCGTGCTGCCCTGGCCGGGATCCTCTTTGTCCTGATGAGCGGTAT
CCCTTGGCGGATGTTGCCCGCCGAGATGGGCTGTGGCTCAGGTGTGACATGCTGGCGAAGGCTCAGAGATTGGCAGTTGGCCGGGATCTGGGACCAGTTG
CATCGGACCTTGCTGCACCAGTTGCACCGCGCCGGTCACCTGGACTGGAGCCGGGCCTGCATGGACAGTGCGTCCATCGCGGCAAAAAAGGGGGCGACGT
CATCGGGCCGAACCCGACGGATCGCGGCCGCCCCGGCACGAAGCGCCACATCATCACTGACAGGCGGGGCATTCCCCTGACGGTGCGTCTCAGCGGCGCC
AACCTCCACGATAGTAGAATGCTTGAGCCTTTGCTTGATGCCATTCCTCCTGTCCAAGGTAAGCGGGGACGGCCACGCAAGCGGCCCGGCAAGCTCCATG
CGGACAAGGGCTACGACTATGCCCGCTGCCGCCGGGCTTGCAGCAAACGTAGTATCAAGCATCGCATCGCCCGAAAGGGTGTCGAAAGCAGCGCCCATCT
CGGAAAGCATCGCTGGGTCGTCGAACGCAGCTTCGCCTGGCTTTCCCAATTTCGCCGCCTCGCCGTCAGATACGAACGCAAGGCGGAAATTCACCTCGCC
CTCACCATCCTGGCCTGCGCCATCATCTGCTTCAGAGCCCTGACCAAATGGTTTTGAAACACGCTC
CCTTGCTGCCACCCATATCTCTGTCCTCGAAAGGCGGGCGGCCTCGGATATCGGACCGTGCTGCCCTGGCCGGGATCCTCTTTGTCCTGATGAGCGGTAT
CCCTTGGCGGATGTTGCCCGCCGAGATGGGCTGTGGCTCAGGTGTGACATGCTGGCGAAGGCTCAGAGATTGGCAGTTGGCCGGGATCTGGGACCAGTTG
CATCGGACCTTGCTGCACCAGTTGCACCGCGCCGGTCACCTGGACTGGAGCCGGGCCTGCATGGACAGTGCGTCCATCGCGGCAAAAAAGGGGGCGACGT
CATCGGGCCGAACCCGACGGATCGCGGCCGCCCCGGCACGAAGCGCCACATCATCACTGACAGGCGGGGCATTCCCCTGACGGTGCGTCTCAGCGGCGCC
AACCTCCACGATAGTAGAATGCTTGAGCCTTTGCTTGATGCCATTCCTCCTGTCCAAGGTAAGCGGGGACGGCCACGCAAGCGGCCCGGCAAGCTCCATG
CGGACAAGGGCTACGACTATGCCCGCTGCCGCCGGGCTTGCAGCAAACGTAGTATCAAGCATCGCATCGCCCGAAAGGGTGTCGAAAGCAGCGCCCATCT
CGGAAAGCATCGCTGGGTCGTCGAACGCAGCTTCGCCTGGCTTTCCCAATTTCGCCGCCTCGCCGTCAGATACGAACGCAAGGCGGAAATTCACCTCGCC
CTCACCATCCTGGCCTGCGCCATCATCTGCTTCAGAGCCCTGACCAAATGGTTTTGAAACACGCTC
Recoding section
- Recoding by frameshift
- Frame -1
- Type
- Experimentally demonstrated No
Stimulators :
- Shine-Dalgarno sequence :
- Secondary structure :
Recoding motif :
Protein section
ORF number : 3
ORF 1
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 426 bp | 141 aa | 55 | 480 | + | No |
Description : First part of the transposase
ORF sequence :
MSTSLVSDGLWAMIEPLLPPISLSSKGGRPRISDRAALAGILFVLMSGIPWRMLPAEMGCGSGVTCWRRLRDWQLAGIWDQLHRTLLHQLHRAGHLDWSR
ACMDSASIAAKKGATSSGRTRRIAAAPARSATSSLTGGAFP
ACMDSASIAAKKGATSSGRTRRIAAAPARSATSSLTGGAFP
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 780 bp | 259 aa | 78 | 857 | + | No |
Description : Second part of the transposase
ORF sequence :
WPLGHDRTLAATHISVLERRAASDIGPCCPGRDPLCPDERYPLADVARRDGLWLRCDMLAKAQRLAVGRDLGPVASDLAAPVAPRRSPGLEPGLHGQCVH
RGKKGGDVIGPNPTDRGRPGTKRHIITDRRGIPLTVRLSGANLHDSRMLEPLLDAIPPVQGKRGRPRKRPGKLHADKGYDYARCRRACSKRSIKHRIARK
GVESSAHLGKHRWVVERSFAWLSQFRRLAVRYERKAEIHLALTILACAIICFRALTKWF
RGKKGGDVIGPNPTDRGRPGTKRHIITDRRGIPLTVRLSGANLHDSRMLEPLLDAIPPVQGKRGRPRKRPGKLHADKGYDYARCRRACSKRSIKHRIARK
GVESSAHLGKHRWVVERSFAWLSQFRRLAVRYERKAEIHLALTILACAIICFRALTKWF
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 803 bp | 267 aa | 55 | 857 | + | Yes |
Chemistry : DDE
ORF sequence :
MSTSLVSDGLWAMIEPLLPPISLSSKGGRPRISDRAALAGILFVLMSGIPWRMLPAEMGCGSGVTCWRRLRDWQLAGIWDQLHRTLLHQLHRAGHLDWSR
ACMDSASIAAKKGGDVIGPNPTDRGRPGTKRHIITDRRGIPLTVRLSGANLHDSRMLEPLLDAIPPVQGKRGRPRKRPGKLHADKGYDYARCRRACSKRS
IKHRIARKGVESSAHLGKHRWVVERSFAWLSQFRRLAVRYERKAEIHLALTILACAIICFRALTKWF
ACMDSASIAAKKGGDVIGPNPTDRGRPGTKRHIITDRRGIPLTVRLSGANLHDSRMLEPLLDAIPPVQGKRGRPRKRPGKLHADKGYDYARCRRACSKRS
IKHRIARKGVESSAHLGKHRWVVERSFAWLSQFRRLAVRYERKAEIHLALTILACAIICFRALTKWF
Blast result :
Comments
ISPye1 is 81% aa similar to ISMra6.
ISPye1 was identified by in silico nucleotide sequence analysis of Paracoccus yeei strain FDAARGOS_252 (15 copies of this IS present in the genome). The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
ISPye1 was identified by in silico nucleotide sequence analysis of Paracoccus yeei strain FDAARGOS_252 (15 copies of this IS present in the genome). The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Chmielowska C., Szuplewska M., Bartosik D. (2018) Direct submission.
2] Goldberg,B., Campos,J., Tallon,L., Sadzewicz,L., Sengamalay,N., Ott,S., Godinez,A., Nagaraj,S., Vavikolanu,K., Aluvathingal,J., Nadendla,S. and Sichtig,H. (2017) Direct GenBank submission.
2] Goldberg,B., Campos,J., Tallon,L., Sadzewicz,L., Sengamalay,N., Ott,S., Godinez,A., Nagaraj,S., Vavikolanu,K., Aluvathingal,J., Nadendla,S. and Sichtig,H. (2017) Direct GenBank submission.