LTR36

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0000498
TE superfamily	ERV1
TE class	LTR
Species	Haplorrhini
Length	611
Kimura value	14.72
Tau index	0.9931
Description	LTR36 (Long Terminal Repeat) for ERV1 endogenous retrovirus
Comment	LTR36 is a putative LTR related to the MER4-int group. Specific to primates.
Sequence	TGTAACCGAGTACCCCCATTTTTCTAAGAGAAAGAGAATGAGTTTTATTATTTTTTTTTCTCTTTTCTCCTTTTCCCCCTGTTCCCCACTTCCTACTTAGCCCTTTAGAAATGCAATTATAACCTTTTACCTCCCCTTCACCAGACACTCCCTACAGGGCAAGTTCATCTAACTATGTGCTTAGAAGCTCCAGAGCGGAACTCTCNCCCACCAGGAGGTTGCCTCGAGAGACAACAGTCGATTTACAACCCAAAGTATGCCCGCTACGAAACTCTCTCCCACCTGGAGAGTTTCGGCCACCTTTACAACCTAGTTCTGCCCACGAAGGCGCCAGCGGTCACCAGCTCGACCGCCCGGTAGATAAGGCACCGAAGCNAGTACGCGGACCCCCACCTGCTCGCTTCCTCCCCTGCGTGCCATTCATGCCAAGCCCCCTTTTAAAAGCGCCCGCTTTCTGCTCCAAAAGCGAAGCGGTACCCTTAAGGCAGGAAGCCTGTACTTCTTCCCCTAAGCTAGCTTTGGAATAAAAAGTCACTTTCTTTATACCAGACCTCGCTCTTGTTAATTGGACTCTGCAAGCGGCGAGCGACTGAACCTGCGTTTCGGTTACA

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
LTR36	DOF5.1	49	67	-	19.24	GAAAAGAGAAAAAAAAATA
LTR36	DOF5.8	49	67	+	17.82	TATTTTTTTTTCTCTTTTC
LTR36	DOF5.1	56	74	-	17.44	AAAAGGAGAAAAGAGAAAA
LTR36	ZNF320	69	88	-	17.16	TGGGGAACAGGGGGAAAAGG
LTR36	DOF5.8	57	75	+	17.08	TTTCTCTTTTCTCCTTTTC
LTR36	ZNF682	424	434	+	17.06	TGCCAAGCCCC
LTR36	DOF5.1	57	75	-	16.97	GAAAAGGAGAAAAGAGAAA
LTR36	DOF3.4	51	67	+	16.48	TTTTTTTTTCTCTTTTC
LTR36	PRDM9	70	89	-	16.32	GTGGGGAACAGGGGGAAAAG
LTR36	DOF3.6	48	68	+	15.94	TTATTTTTTTTTCTCTTTTCT

1 2 3 4 ... 29

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).