Assessing long-distance RNA sequence connectivity via RNA-templated DNA-DNA ligation.

ABSTRACT: Many RNAs, including pre-mRNAs and long non-coding RNAs, can be thousands of nucleotides long and undergo complex post-transcriptional processing. Multiple sites of alternative splicing within a single gene exponentially increase the number of possible spliced isoforms, with most human genes currently estimated to express at least ten. To understand the mechanisms underlying these complex isoform expression patterns, methods are needed that faithfully maintain long-range exon connectivity information in individual RNA molecules. In this study, we describe SeqZip, a methodology that uses RNA-templated DNA-DNA ligation to retain and compress connectivity between distant sequences within single RNA molecules. Using this assay, we test proposed coordination between distant sites of alternative

SUBMITTER: Roy CK 

PROVIDER: S-EPMC4442144 | biostudies-literature | 2015 Apr

REPOSITORIES: biostudies-literature