Table 3. List of 25 DE miRNAs in LD muscle between Yorkshire pigs with low and high RFI.

Ssc miRNA	Ref miRNA	FC(L/H)	p-value	q-value	Mature Sequence
ssc-miR-215-5p	hsa-miR-215-5p	−673.96	4.57E-27	1.48E-24	augaccuaugaauugacagaca
ssc-new-1	hsa-miR-141-3p	−23.34	2.12E-04	1.73E-02	uaacacugucugguaaagaug
ssc-miR-194-5p	hsa-miR-194-5p	−19.66	8.87E-09	1.44E-06	uguaacagcgacuccauguggac
ssc-miR-365-3p	hsa-miR-365a-3p	−1.94	0.09	1	uaaugccccuaaaaauccuuau
ssc-new-2	hsa-miR-1249	−1.74	0.41	1	acgcccuucccccccuucuuca
ssc-miR-486-5p	hsa-miR-486-5p	−1.69	0.04	1	uccuguacugagcugccccgag
ssc-miR-1271-5p	hsa-miR-1271-5p	−1.64	0.13	1	cuuggcaccuaguaagcacuca
ssc-miR-145-5p	hsa-miR-145-5p	−1.6	0.18	1	guccaguuuucccaggaaucccu
ssc-miR-99b-5p	hsa-miR-99b-5p	−1.51	0.17	1	cacccguagaaccgaccuugcg
ssc-miR-191-5p	hsa-miR-191-5p	−1.5	0.15	1	caacggaaucccaaaagcagcug
ssc-miR-10b-5p	hsa-miR-10b-5p	−1.45	0.14	1	uacccuguagaaccgaauuugu
ssc-miR-29c-3p	hsa-miR-29c-3p	1.48	0.35	1	uagcaccauuugaaaucgguua
ssc-miR-92b-3p	hsa-miR-92b-3p	1.5	0.44	1	uauugcacucgucccggccucc
ssc-miR-101-3p	hsa-miR-101-3p	1.55	0.19	1	uacaguacugugauaacugaag
ssc-miR-338-3p	hsa-miR-338-3p	1.56	0.37	1	uccagcaucagugauuuuguu
ssc-miR-199b-3p	hsa-miR-199b-3p	1.61	0.15	1	acaguagucugcacauugguu
ssc-new-3	hsa-miR-130a-3p	1.73	0.25	1	cagugcaauaguauugucaaagc
ssc-miR-208b-3p	hsa-miR-208b-3p	1.74	0.11	1	auaagacgaacaaaagguuugu
ssc-miR-1-3p	hsa-miR-1	1.81	0.09	1	uggaauguaaagaaguauguau
ssc-miR-30e-5p	hsa-miR-30e-5p	1.83	0.04	1	uguaaacauccuugacuggaagcu
ssc-miR-335-3p	hsa-miR-335-3p	1.89	0.28	1	uuuuucauuauugcuccugacc
ssc-miR-136-3p	hsa-miR-136-3p	1.93	0.12	1	caucaucgucucaaaugagucu
ssc-new-4	hsa-miR-144-3p	2.1	0.32	1	uacaguauagaugauguacu
ssc-new-5	hsa-miR-301b	2.15	0.46	1	cagugcaaugauauugucaaagc
ssc-new-6	hsa-miR-190a	2.28	0.34	1	ugauauguuugauauauuagguug

The p-value was calculated by the formula: with a Python script.

The q-value was calculated by “fdrtool” in R, and FDR (false discovery rate) ≤ 0.05 for DEG significant determination.