Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing

Table 1 Enrichment of MBNL binding site motifs in sequences upstream of alternative PAS with unknown poly(A) signal that are coupled with alternative TSS or alternative exons

Motifs	Source	Total	Random set	p value ^a	Coupled PAS	Not coupled PAS	p value ^b
AKCCTGG	DREME	1271	35	0	881	390	9.8E-44
CTSCYB	Masuda, 2012 [25]	898	708	2.6E-07	442	456	9.7E-01
YGCY	Purcell, 2012 [26]	2961	3139	1.0E-00	1578	1383	3.2E-02
RSCWTGSK	Batra, 2014 [24] – MBNL1	145	93	4.1E-04	80	65	2.5E-01
TGCYTSYY	Batra, 2014 [24] – MBNL2	95	55	6.5E-04	50	45	4.9E-01
CWGCMWKS	Batra, 2014 [24] – MBNL3	1306	139	4.7E-262	870	436	1.5E-32
	Total PASs	6979	6979	–	3614	3338	–

^aThe enrichment of binding motifs in sequences upstream of PASs without a known poly(A) signal were calculated by Fisher’s exact test (one-sided). A randomly generated set was used as a background for enrichment analysis
^bPASs without significant coupling were used as the background set to identify a binding site that is enriched in the coupled PASs without a known poly(A) signal

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