CR1-13_AMi

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0001291
TE superfamily	CR1
TE class	LINE
Species	Amniota
Length	724
Kimura value	35.73
Tau index	0.0000
Description	Non-LTR retrotransposon.
Comment	Fragment.
Sequence	AAAAAGGGATTAGAAAATAATACTGAANATANTATAATGCCATTATATAAATCGATGGTGCACTTCACTTGAATACCGCGTTCAGTTCTGGTCACCCTATCTCAAAGAAATANAGCAGAAATAAGGAGTTCGAGACGGGCGACGAAAATGATTAGAGGCAGAGAGACTTCCATATGAAGAGAGANTGAAGACTGGACTGTTTAGTTTAGAGAGGAGACGAATGAGGGGACATGATAGAGGTATACAAAATAATGAATGGACAGGGGAGCAATCGGGAGCTCCTATTTACCCTTTCTCATAATACAAGAACAAGGACATTCAATGAAATTGAAAGGCAACAATTTAAAACTGATAAAAGGAAATACTTTTTTTACACAATGCATAATTAACCTGTGGAACTCACTGCCACAAGATATCACTGAGGCCAAGAGCTTAGCAGGATTCAAAAAGGATTAGACATTTATATGGATAACGAGAACATCCGCAGTTACATTAGATAGGATAAAAAATATAAGGGATATAANCCTCATGCTTCAGGGCATAAGCCAACCACTAACTGACGGGGTTAGGAAGAAACTTCCCCTATGGGCAGGTTATTCCATAATTGCCATTATGGGGNTTTTGCACCTTCCTCTGAAGCATCTGGTACTGGCCACTGTCAGAGACAGGATACTGGACTAGATGGACCACTGGTCATTCCACTATNGCGAATTAATTGTTCTTA

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
CR1-13_AMi	MYB60	546	555	+	14.16	CCAACCACTA
CR1-13_AMi	HSFB2A	572	581	-	13.96	GGAAGTTTCT
CR1-13_AMi	Irf1	323	333	+	13.90	TGAAATTGAAA
CR1-13_AMi	pqm-1	348	355	+	13.89	ACTGATAA
CR1-13_AMi	DOF5.1	1	19	+	13.85	AAAAAGGGATTAGAAAATA
CR1-13_AMi	ces-2	42	50	+	13.58	ATTATATAA
CR1-13_AMi	DOF3.4	1	17	-	13.53	TTTTCTAATCCCTTTTT
CR1-13_AMi	egl-27	347	357	-	13.53	TTTTATCAGTT
CR1-13_AMi	blmp-1	324	334	+	13.51	GAAATTGAAAG
CR1-13_AMi	HSFB2B	571	581	-	13.50	GGAAGTTTCTT

1 2 3 4 5 6 ... 25

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).