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	Mecom	495	505	+	14.75	AGATAGGATAA
CR1-13_AMi	Zm00001d038683	683	690	-	14.75	GTGGTCCA
CR1-13_AMi	NTL8	570	577	+	14.41	GAAGAAAC
CR1-13_AMi	MYB94	546	555	+	14.38	CCAACCACTA
CR1-13_AMi	AT1G74840	464	472	+	14.36	TATGGATAA
CR1-13_AMi	EIL4	318	326	+	14.36	TTCAATGAA
CR1-13_AMi	ATMYB31	547	561	+	14.31	CAACCACTAACTGAC
CR1-13_AMi	MYB31	547	561	+	14.31	CAACCACTAACTGAC
CR1-13_AMi	DOF5.8	1	19	-	14.27	TATTTTCTAATCCCTTTTT
CR1-13_AMi	HSFA1B	573	580	+	14.20	GAAACTTC

1 2 3 4 5 ... 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).