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CircPrimer 2.0: a software for annotating circRNAs and predicting translation potential of circRNAs.

ABSTRACT:

Background

Some circular RNAs (circRNAs) can be translated into functional peptides by small open reading frames (ORFs) in a cap-independent manner. Internal ribosomal entry site (IRES) and N⁶-methyladenosine (m⁶A) were reported to drive translation of circRNAs. Experimental methods confirming the presence of IRES and m⁶A site are time consuming and labor intensive. Lacking computational tools to predict ORFs, IRESs and m⁶A sites for circRNAs makes it harder.

Results

In this report, we present circPrimer 2.0, a Java based software for annotating circRNAs and predicting ORFs, IRESs, and m6A sites of circRNAs. circPrimer 2.0 has a graphical and a command-line interface that enables the tool to be embed into an analysis pipeline.

Conclusions

circprimer 2.0 is an easy-to-use software for annotating circRNAs and predicting translation potential of circRNAs, and freely available at www.bio-inf.cn .

SUBMITTER: Zhong S

PROVIDER: S-EPMC9169404 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature

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CircPrimer 2.0: a software for annotating circRNAs and predicting translation potential of circRNAs.

Zhong Shanliang S Feng Jifeng J

BMC bioinformatics 20220606 1

<h4>Background</h4>Some circular RNAs (circRNAs) can be translated into functional peptides by small open reading frames (ORFs) in a cap-independent manner. Internal ribosomal entry site (IRES) and N6-methyladenosine (m6A) were reported to drive translation of circRNAs. Experimental methods confirming the presence of IRES and m6A site are time consuming and labor intensive. Lacking computational tools to predict ORFs, IRESs and m6A sites for circRNAs m ...[more]

PMID: 35668371

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