Alternative polyadenylation produces multiple 3’ untranslated regions of odorant receptor mRNAs in mouse olfactory sensory neurons

Table 1 Alternative 3′ ends for Olfr1507 and Olfr15 revealed in silico, and their subsequent experimental validation

		RNA-Seq		RL-PAT
Gene	PolyA site	3’end position (nt after stop)	Matching canonical PAS (nt after stop)^b	Cleavage position (nt after stop)	Nb of clones sequenced	PolyA tail length (nt, mean ± SEM)	Matching canonical PAS (nt after stop)^e
Olfr1507	XS	Not detected	Not relevant	92	2	19 ± 8	None
	XS	Not detected	Not relevant	114	2	17 ± 3	None
	S	1193–1273^a	AAUAAA (1263, 1281)	1283	7	44 ± 18	AAUAAA (1263, 1281)
				1290	1	11
				1294	1	39
	M	2593	AUUAAA (2628)	2653	1	86	AUUAAA (2628)
	L	4013	AAUAAA (4076)	4093	1	16	AAUAAA (4076)
				4109	2	16 ± 1
				4112	1	46
	XL	4943	AAUAAA (5049)^c	No RL-PAT confirmation^d			Not relevant
Olfr15	S	902	AAUAAA (901)	924	2	87 ± 1	AAUAAA (901)
				931	1	26
				936	1	19
	M1	2462	AUUAAA (2487), AAUAAA (2529)	No RL-PAT confirmation^d			Not relevant
	M2	2742	AAUAAA (2665, 2675, 2685, 2806, 2798, 2806, 2814, 2822), AUUAAA (2790)	2816	1	22	AAUAAA (2798, 2806, 2814, 2822), AUUAAA (2790)
				2820	1	28
				2824	1	31
				2836	1	48
	L	4762-4837^a	AUUAAA (4717)	No RL-PAT confirmation^d			Not relevant

^aThe 3’ ends distant of less than 100 nt were merged as a single polyA site. ^bFor each putative polyA site, predicted canonical PAS matching in a [− 100;+ 100] window from the RNA-Seq-deduced 3′ end are indicated. ^cNote that for Olfr1507 3’XL isoform, the closest canonical PAS is slightly outside the 100-nt precision window. The cleavage site and polyA tail length were experimentally mapped using RL-PAT on adult male OM, further confirming the polyA site usage for most of the 3’UTR isoforms. ^dXL site of Olfr1507, M1 and L sites of Olfr15 could not be confirmed by RL-PAT because no specific forward primer could be designed due to repeat sequences upstream of these polyA sites. ^eFor each confirmed polyA site, predicted canonical PAS matching in a [− 100;0] window from the identified cleavage sites are indicated

ISSN: 1471-2164