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	Stat2	105	114	-	15.65	AAAACAGAAA
LTR1	KLF14	155	163	-	15.62	GGGGCGTGG
LTR1	Bteb2	154	166	+	15.57	GCCACGCCCCCAT
LTR1	ARF36	756	767	+	15.44	GGGGGACAAGGG
LTR1	ZNF281	12	21	+	15.43	GGGGGCAGGG
LTR1	RAP2-1	252	259	+	15.41	CACCGACA
LTR1	ERF038	252	259	+	15.36	CACCGACA
LTR1	ERF015	252	259	+	15.33	CACCGACA
LTR1	KLF6	155	163	+	15.29	CCACGCCCC
LTR1	KLF5	154	163	+	15.27	GCCACGCCCC

1 2 3 4 5 6 7 ... 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).