Eutr18

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0001266
TE superfamily	Long_Terminal_Repeat_Element
TE class	LTR
Species	Eutheria
Length	636
Kimura value	33.25
Tau index	0.8527
Description	Ancient interspersed repetitive sequence from eutherian mammals.
Comment	Still incomplete, at least on on 5'end. LTR classification is not entirely sure.
Sequence	GTATTTGTGAGGAAGGGTTCTNNNNTTTGTATTTGNAGAGGAACAAGCTGGGCAGGAGACCAGCTCCCNGGGGNGGGANGGNAAGATGGCGCCCGCCACGCGGAGACAGGCCGGGAGCTGGGAGGGAAGGAAGCCAGGCAAGGTGCCTGCGAAGTTGTGCCAGCCCTTTGGGGCTAGAGCGTAACTNTCCTGGGGAATAGAACAGGGCCTGCGAGCCTGGNAAGCGAGTTAGCTATNGTAGGATCAGAAACCTGTACTTTGNAAGCCGGACTGTTTTTATGCTTCTTGTATTTTCTGTGTTTATTTCCTTTTTGTTCTCCCTTAGTATTTAGTAAAGTTCTTTTTGAAAATNCCAGCCTGTCTCAGCTGTGCTAAGGGGAACCAAGGAAAGGGGTTTTTGTCCACGCTTGGGCCGGAGTTTTAAAGGGGGAGCGGCGCACCCCTGGGGCCTGGGAGTGGTGGCGGCAGGAACAGGCCAGAGAGGGAGGCCCCAAGGGGAAGGTGAAACTCAGGGAGACAGAGTCGGGGTGCCTGGTTACCCCCTCCCCTACGGAGATTCTCCTTCCAGAGCTCTTCTCTGCTCAAACCTTGGAGGGTTCTGTGTTTTGTTTTAATAAGGGAGGCCGTTCCCTTACA

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
Eutr18	ZNF148	426	435	-	14.26	CCGCTCCCCC
Eutr18	KLF5	539	548	+	14.20	CCCCCTCCCC
Eutr18	ERF076	456	465	-	14.20	CCGCCACCAC
Eutr18	TFAP2A	487	499	+	14.18	GGCCCCAAGGGGA
Eutr18	DOF4.2	303	313	-	13.97	AAAAAGGAAAT
Eutr18	FOXD3	298	311	-	13.96	AAAGGAAATAAACA
Eutr18	ZNF770	619	626	-	13.95	CGGCCTCC
Eutr18	TFAP2C	487	499	+	13.90	GGCCCCAAGGGGA
Eutr18	STAT1::STAT2	497	509	-	13.88	AGTTTCACCTTCC
Eutr18	KLF14	540	548	-	13.88	GGGGAGGGG

1 2 3 4 5 6 7 ... 34

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).