MER4D1

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0000803
TE superfamily	ERV1
TE class	LTR
Species	Haplorrhini
Length	900
Kimura value	12.09
Tau index	0.9731
Description	MER4D1 Long Terminal Repeat for ERV1 endogenous retrovirus
Comment	MER4D1 LTR is a ~90% identical variant of MER4D, which itself is a ~192 bp insertion variant with respect to MER4B. 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	TGTAAACCAAAAATAAAATTCTAAGCCCCCCAACCGACTGAATGGACCCCTCCTCTCGGCCAAGGGCATTCCAAAGTAAACCTGAAAAACTAGTTCAGGCCATGATGGGAAGGGGGGGTCGGACATGCCTCATTATACCCTCCTCCCTTTGGAATTCAGGCACAACTGACCAGCATTAACATTAAAACAGAGATCTTAAGACTGACAAAACAGACTCTTTGTAGCAATAAGATACCAAATTCCAACCTGACTCTAGTATAGCATCACATGACAGATAGCAGGCCCTGAAAGAAATCGAAGTATTTTACCCCAAAATATATTTCTTTGACATATTTTGAAATGGCCCTGCAAAGCTGTCTCTTGTGGGGAAAATCTACATTCTGTAGAGAATCCCCTTCCCTTTCCAGGTCTTTTTCCTGATCCAGGAGAGAATTAACTAAGAGTCTGGCACCTTTTTAAGTCTGATAAGAAACATTTACAATCTATTCTCTCTGAAGCCTGCTACCTGGAGGCTTCATCTGCATGATAAGAACCTTGGTCTCCACAACCCCTTATCTTAACCCAGACACTCCTTTCTATTGATTCCAGGTCTTTAGATAATAACTNAACTCTTTCAACCAATTGCCAATCAGAAAATCTTTGAATCCACCGTATGACCTGGAAGCCCCCCCCTCCACTTCGAGTTGTCCCGCCTTTCCGGACCGAACCAATGTACATCTTACATGTATTGATTGATGTCTTATGTCTCCCTAAAATGTATAAAACCAAGCTGTAGCCCGACCACCTTGGGCACATGTTCTCAGGATCTCCTGGGGCTGTGTCACGGGCCATGGTCACTCATATTTGGCTCAGAATAAATCTCTTCAAATATTTTACAGAGTTTGACTCTTTTCGTCGACA

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
MER4D1	MAZ	47	54	+	14.06	CCCCTCCT
MER4D1	lmd	25	36	+	14.05	GCCCCCCAACCG
MER4D1	dmd-10	469	476	-	14.04	AATGTTTC
MER4D1	knrl	87	97	+	13.89	AAACTAGTTCA
MER4D1	ZNF263	141	147	-	13.83	GGGAGGA
MER4D1	l(3)neo38	112	118	-	13.75	CCCCCCC
MER4D1	l(3)neo38	665	671	+	13.75	CCCCCCC
MER4D1	l(3)neo38	666	672	+	13.75	CCCCCCC
MER4D1	sug	25	36	+	13.61	GCCCCCCAACCG
MER4D1	ONECUT1	726	734	-	13.46	CAATCAATA

1 2 3 4 5 6 ... 30

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).