Chen, J. et al. Over 20% of human transcripts might form sense-antisense pairs.
CAG repeats are present in numerous human transcripts but neither their structures nor physiological functions have been satisfactorily recognized.
Here, we describe a combined experimental/computational technology to reveal a catalog of functional regulatory elements embedded in 3′ UTRs of human transcripts.
Adenylate-uridylate (AU -rich elements (AU -richelementsce instAREsity elements thareare known to be located in the 3′ untransequenceeginstabilityin thousands of human transcripts.
In addition to let-7, Lin28 binds to various mRNAs including ∼50% of the human transcripts with motifs of GGAG or GGAG-like, although it is still unclear how its global mRNA-binding ability contributes to iPSC reprogramming61,62,63.
Human transcripts were retrieved from Biomart (Ensembl Genes 70 GRCh37), and SUPPA eventGenerator script was used to annotate local AS events (AS events; script available at https://github.com/comprna/SUPPA).
smFISH probes targeting the coding sequence of HER2, ER and Ki-67 genes were designed based on the previously described database of 20-mers covering all human transcripts (www.fusefish.eu26).eu26
There are more than 30% annotated human transcripts containing NATs (Ozsolak et al., 2010), and around 70%75%% human genes have APA (Elkon et al., 2013; Derti et al., 2012).
The probes covered ∼17,000 of the best-defined human transcripts represented as RefSeq.
miRNAs are estimated to regulate at least one third of all human transcripts [14].
This microarray contains 54,656 probes corresponding to 47,400 human transcripts.
