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	KLF16	729	739	+	17.29	GCCACACCCCC
LTR1	SP9	155	164	+	17.16	CCACGCCCCC
LTR1	Klf3/8/12	154	162	+	16.60	GCCACGCCC
LTR1	SP8	155	165	+	16.59	CCACGCCCCCA
LTR1	SP8	601	611	+	16.57	ACACGCCCACT
LTR1	ARALYDRAFT_496250	43	50	-	16.55	GGGACCAC
LTR1	TCP3	43	50	-	16.23	GGGACCAC
LTR1	TCP24	43	50	-	16.21	GGGACCAC
LTR1	KLF9	154	164	+	16.16	GCCACGCCCCC
LTR1	TCP5	43	50	-	16.15	GGGACCAC

1 2 3 4 5 ... 56

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).