LTR1

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0000375
TE superfamily	ERV1
TE class	LTR
Species	Haplorrhini
Length	783
Kimura value	9.46
Tau index	1.0000
Description	LTR1 (Long Terminal Repeat) for human endogenous retrovirus HUERS-P2
Comment	-
Sequence	TGATACGGGAGGGGGGCAGGGAAGTGCTGGGNAGAGAAGGGCGTGGTCCCTGGCTAGGGCTCCACCCCCGGGCCTGTGCCCACGGACCTAGGTGAGGACAGGCATTTCTGTTTTCGTGCCCAAATGTTGCATTTCCCAAGACCACCCTGGCCCGCCACGCCCCCATCCTGTGCCTATAAAAACCCCGAGACCCTAGCGGGCAGAGACACAAGNCGGCTGGACGTCGAGAGGAACACACCGGCGGAAGAGCACACCGACAGGCACCGGCAGACGCCGGCAGGCCATCGACCGGCGGAACGACGCGGAGTTTGGCCGGGGCGGTCGGAGGAGAGCCCGGCCGCTGAGCGGCCCGACTCCAGGGGAAAACCACCTTCCCACTCCATCCCCTTCTGGCTCCCCCATCTGCTGAGAGCTACTTCCACTCAATAAAACCTTGCACTCATTCTCCAAGCCCACGTGTGATCCGATTCTTCCGGTACACCAAGGCAAGAACCCCGGGATACAGAAAGCCCTCTGTCCTTGCGATAAGGCAGAGGGTCTAATTGAGCTGATTAACACAAGCCGCCTACGGACGGCTAAACTAAAAGAGCACNCTGTAACACACGCCCACTGGGGCTTCAGGAGCTGTAAACATTCACCCCTAGACGCTGCCGTGGGGTCGGAGCCCCACAACCTGCCCGTCTGCATGCTCCCCTAGAGGTTTGAGCAGCGGGGCACCGAAGAAGCGAGCCACACCCCCGTCGCACGCCCTGCGAGGGGGACAAGGGAACTTTTCCCGTTTCA

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
LTR1	CG3065	154	164	+	20.72	GCCACGCCCCC
LTR1	SP3	154	164	+	19.87	GCCACGCCCCC
LTR1	KLF16	154	164	+	19.28	GCCACGCCCCC
LTR1	Spps	154	164	+	18.44	GCCACGCCCCC
LTR1	KLF3	39	48	-	18.15	GACCACGCCC
LTR1	KLF9	729	739	+	18.02	GCCACACCCCC
LTR1	dar1	729	739	+	17.97	GCCACACCCCC
LTR1	KLF11	155	164	+	17.92	CCACGCCCCC
LTR1	Klf15	149	170	+	17.78	GGCCCGCCACGCCCCCATCCTG
LTR1	Klf6-7-like	150	169	+	17.72	GCCCGCCACGCCCCCATCCT

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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).