Table 1. List of oligonucleotides.

Category	Primer Name	Primer Sequence (5’ to 3’)	Product Size
Genotyping	DUX4-Fwd-2	AGACCTGCGCGCAGTGCGCAC	226 bp
	DUX4-R-(DAS)	TGATCACACAAAAGATGCAAATC
DUX4-fl RT-PCR (Nested)	DUX4-3-F	CACTCCCCTGCGGCCTGCTGCTGGATGA	525 bp (with Intron 1) 381 bp (without Intron 1)
	DUX4-3-R	CCAGGAGATGTAACTCTAATCCAGGTTTGC
	DUX4-1A-F	GAGCTCCTGGCGAGCCCGGAGTTTCTG
	DUX4-184-R	GTAACTCTAATCCAGGTTTGCCTAGACAGC
D4Z4 qRT-PCR Exon 1	DUX4-UTR-Fwd	AGGCGCAACCTCTCCTAGAAAC	114 bp
	DUX4-A-Rev	GCTCCTCCAGCAGAGCCCGGTATTC
DUX4-fl qRT-PCR Exons 2–3	DUX4-cDNA-F10	ACCGCGGAGAACTGCCATTC	159 bp
	DUX4-cDNA-R4	GACATTCAGCCAGAATTTCACG
DUX4 RT-PCR Exons 2–6 and Exons 2–7	DUX4-Ex2-F1	GAGAGACTCCACACCGCGGA	178 bp for Exon 2–6 RT-PCR (germline transcript)
	DUX4-Ex6-R2	GAAACGTGGTATCTGGAGAG
	DUX4-Ex7-R	CAGTAAGAGGACCTTGTGAG	201 bp for Exon 2–7 RT-PCR (germline transcript)
BiS-D4Z4	D4Z4-BiS-Fwd	AGGAAGGTAGGGAGGAAAAG	457 bp
	D4Z4-BiS-Rev	ACCCTTCCCTACATATTTCC
ChIP PCR	D4Z4-Fwd-8	GGGACGCTGAGCGTTCCAG	277 bp
	D4Z4-Rev-7	GGACGCTGACCGTTTTCC
ChIP qPCR	D4Z4-q-F1	CCGCGTCCGTCCGTGAAA	106 bp
	D4Z4-q-R1	TCCGTCGCCGTCCTCGTC
GAPDH Control RT-PCR	GAPDH-Fwd	GAAGGTGAAGGTCGGAGTC	226 bp
	GAPDH-Rev	GAAGATG GTGATGGGATTTC
GAPDH Control qRT-PCR	GAPDH-q-Fwd	CCCAATACGACCAAATCCGT	119 bp
	GAPDH-q-Rev	TCTCTGCTCCTCCTGTTCGA
Verification of HCT116 DNMT KOs Genomic DNA PCR	DNMT1-Gen-F1	AAACTGGCAGGTGCTAACTG	251 bp
	DNMT1-Rev	AGATGTGATGGTGGTTTGCC
	DNMT3B-Gen-F1	TTGGTTTTGCTCAGAGCCAG	227 bp
	DNMT3B-Gen-R1	ACGTGTGGGCAAGAGATTTC
Verification of HCT116 DNMT KOs RT-PCR	DNMT1-Fwd	AATTATCCGAGGAGGGCTAC	293 bp
	DNMT1-Rev	AGATGTGATGGTGGTTTGCC
	DNMT3B-Fwd	ATCAGAGGCCGAAGATCAAG	186 bp
	DNMT3B-Rev	ATTTCGAGTTCGGACAGCTG
DUX4 target gene expression RT-PCR	TRIM43-Fwd	ACCCATCACTGGACTGGTGT	100 bp
	TRIM43-Rev	CACATCCTCAAAGAGCCTGA
	MBD3L2-Fwd	CGTTCACCTCTTTTCCAAGC	142 bp
	MBD3L2-Rev	AGTCTCATGGGGAGAGCAGA