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RBS Predictor
Enter 5'-UTR sequences
(17 nt upstream of start codon)
or
Upload a file
The RBS Predictor is a neural network ensemble that estimates the rTR of RBSs based on 5’-UTR sequences as queries.
Input
The RBS Predictor requires the 17-nt sequence upstream of the respective AUG start codon as input in DNA or RNA format (A, C, G, T/U). Either the query window (one sequence per row) or file upload (*.txt files) may be used.
Example:
ACCACAGAGTTGAGAGG
ACGTCGAGGAGGATATT
ACCCCTGTCTGTGCTGA
…
Output
As an output, a comma-separated list of the respective query sequences linked to the corresponding predicted rTR values (range: 0 – 100,000 a.u.) is provided as a *.txt file. Further, the network provides the uncertainty of each prediction in percent.
Example:
# sequence,rTR_(a.u.),uncertainty_(%)
ACCACAGAGTTGAGAGG,1431.7064278220291,0.419433
ACGTCGAGGAGGATATT,95347.45688883962,0.20442128
ACCCCTGTCTGTGCTGA,46.54082393966132,0.015141873
…

When you use the RBS Predictor in your published work, please do not forget to cite:

  • Höllerer, S., Papaxanthos, L., Gumpinger, A. C., Fischer, K., Beisel, C., Borgwardt, K., Benenson, Y., & Jeschek, M. (2020). Large-scale DNA-based phenotypic recording and deep learning enable highly accurate sequence-function mapping. Nature communications, 11(1), 3551 (https://doi.org/10.1038/s41467-020-17222-4)

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