Eutr18

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0001266
TE superfamily	Long_Terminal_Repeat_Element
TE order	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	EWSR1-FLI1	121	138	+	18.88	GGAGGGAAGGAAGCCAGG
Eutr18	Klf6-7-like	445	464	-	18.88	CGCCACCACTCCCAGGCCCC
Eutr18	ZNF610	429	438	-	17.95	GCGCCGCTCC
Eutr18	IG1	460	468	-	16.76	CTGCCGCCA
Eutr18	PATZ1	539	549	-	16.43	AGGGGAGGGGG
Eutr18	EWSR1-FLI1	125	142	+	16.38	GGAAGGAAGCCAGGCAAG
Eutr18	ZNF148	540	549	+	16.10	CCCCTCCCCT
Eutr18	MAZ	540	547	+	16.08	CCCCTCCC
Eutr18	ZNF768	477	485	-	16.08	CCCTCTCTG
Eutr18	SP1	540	548	-	16.06	GGGGAGGGG

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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).