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	CDF5	304	324	+	14.91	TTTCCTTTTTGTTCTCCCTTA
Eutr18	ZBTB24	445	454	-	14.60	CCCAGGCCCC
Eutr18	ZNF417	87	93	-	14.55	GGCGCCA
Eutr18	ZNF574	172	185	+	14.52	GGCTAGAGCGTAAC
Eutr18	CG7928	436	447	+	14.44	CGCACCCCTGGG
Eutr18	TFAP2C	487	499	-	14.43	TCCCCTTGGGGCC
Eutr18	CRF4	456	465	-	14.36	CCGCCACCAC
Eutr18	TFAP2A	487	499	-	14.33	TCCCCTTGGGGCC
Eutr18	ERF2	456	468	-	14.30	CTGCCGCCACCAC
Eutr18	SP2	540	548	-	14.29	GGGGAGGGG

1 2 3 4 5 6 ... 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).