@@ -169,7 +169,17 @@ This analysis was performed to identify loci that contain tandem 3' UTRs (loci w
## **Sequence Motif Analysis Relative to Acceptor and Donor Sites** <br>
For each detected gene, we report the first and last nucleotide of each exon as acceptor and donor splice sites, respectively. Each unique genomic position was converted into a BED format and the strand specific sequences of 2 nucleotides were extracted using UCSC Table Browser (GRCh37/hg19) for both acceptor and donor splice sites.
> **`script:`** The python script for extracting dinucleotide sequences of the splice-sites at R1 and R3 domains (i.e., canonical GT and AG motifs) can be found [**here**](https://git.lumc.nl/s.y.anvar/mRNA-Coupling/ipython_notebook/master/scripts/Rdomain_splice_junction_motif.ipynb). <br>
> **`script:`** The python script for extracting dinucleotide sequences of the splice-sites at R1 and R3 domains (i.e., canonical GT and AG motifs) can be found [**here**](https://git.lumc.nl/s.y.anvar/mRNA-Coupling/ipython_notebook/master/scripts/Rdomain_splice_junction_motif.ipynb). <br> <br>
> **input** <br> [:arrow_down:]() FASTA files, intronic sequences of R1 and R3 domains. Sequence headers contains additional information regarding the coupling of the exon with other features, etc. <br> <br>
> **output** <br> [:arrow_up:]() Text file containing information on:
