MER4B

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0000797
TE superfamily	ERV1
TE class	LTR
Species	Haplorrhini
Length	610
Kimura value	12.22
Tau index	0.9326
Description	MER4B Long Terminal Repeat for ERV1 endogenous retrovirus
Comment	Note that MER stands for MEdium Reiteration frequency interspersed repeat. As such, MERs as a group are a grab bag of DNA transposons and retrotransposons.
Sequence	TGTAAACCAAAAATAAAATTCTAAGCCCCCCAACCATCTGAATGGACCCCTCCTCTCGGCCAAGGGCATTCCAAAGTTAACCTGAAAAACTGGTTCAGGCCATGATGGGAAGNGGGGGTCGGACATGCCTCATTATACCCTCCTCCCTTTTGGAATTCAGGNANAGCCGACCAGCATTAACATCAACACAGACCTTAAGTCTGATAAGAAACATTTACAATCTATTCTCTCTGAAGCCTGCTACCTGGAGGCTTCATCTGCATGATAAAACCTTGGTCTCCACAACCCCTTATCGTAACCCAGACATTCCTTTCTATTGATAATAACTCTTTCAACCAATTGCCAATCAGAAAATCTTTAAATCTACCTATGACCTGGAAGCCCCCGCTTCGAGTTGTCCCGCCTTTCCGGACCGAACCAATGTACATCTTACATGTATTGATTGATGTCTCATGTCTCCCTAAAATGTATAAAACCAAGCTGTACCCCGACCACCTTGGGCACATGTTCTCAGGACCTCCTGAGGCTGTGTCACGGGCGCGTCCTTAACCTTGGCAAAATAAACTTTCTAAATTGATTGAGACCTGTCTCAGATACTTTTGGGTTCACA

TF motifs of the concenus sequence

Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.

TE_family	TFBS	Start	End	Strand	Score	Matched sequence
MER4B	PBX1	439	447	-	15.97	ATCAATCAA
MER4B	Pou5f1::Sox2	256	270	-	15.94	TTTTATCATGCAGAT
MER4B	MEIS1	440	448	-	15.29	CATCAATCA
MER4B	grh	87	96	-	15.02	GAACCAGTTT
MER4B	ceh-60	341	349	-	14.71	TGATTGGCA
MER4B	cnd-1	33	40	-	14.66	CAGATGGT
MER4B	NFYA	343	350	+	14.54	CCAATCAG
MER4B	elt-3	202	209	-	14.52	TCTTATCA
MER4B	MEF2C	7	17	+	14.47	CCAAAAATAAA
MER4B	RIN	7	16	-	14.47	TTATTTTTGG

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Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.

The promoter activity across 46 body sites from The Genotype-Tissue Expression (GTEx) project.

The promoter activity across 33 cancer types from The Cancer Genome Atlas (TCGA).