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	KLF10	155	163	-	16.15	GGGGCGTGG
LTR1	MAZ	7	14	-	16.08	CCCCTCCC
LTR1	KLF11	601	610	+	16.06	ACACGCCCAC
LTR1	TCP4	43	50	-	15.98	GGGACCAC
LTR1	KLF11	730	739	+	15.87	CCACACCCCC
LTR1	Klf3/8/12	729	737	+	15.86	GCCACACCC
LTR1	KLF12	155	163	-	15.80	GGGGCGTGG
LTR1	SP3	729	739	+	15.77	GCCACACCCCC
LTR1	luna	154	162	+	15.75	GCCACGCCC
LTR1	PK10344.1	43	50	-	15.74	GGGACCAC

1 2 3 4 5 6 ... 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).