MER1A

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0000734
TE superfamily	Charlie
TE class	DNA
Species	Simiiformes
Length	529
Kimura value	8.80
Tau index	0.6857
Description	hAT-Charlie DNA transposon, MER1A subfamily (non-autonomous)
Comment	15 bp TIR; 8 bp TSDs. Both MER1A and B are deletion products of CHARLIE3. Note that MER stands for MEdium Reiteration frequency interspersed repeat. As such, MERs as a group are a grab bag of DNA transposons and retrotransposons.
Sequence	CAGGGGTCCCCAACCCCCGGGCCACGGACCGGTACCGGTCCGTGGCCTGTTAGGAACCGGGCCGCACAGCAGGAGGTGAGCGGCGGGCGAGCGAGCGAAGCTTCATCTGTATTTACAGCCGCTCCCCATCGCTCGCATTACCGCCTGAGCTCCGCCTCCTGTCAGATCAGCGGCGGCATTAGATTCTCATAGGAGCGCGAACCCTATTGTGAACTGCGCATGCGAGGGATCTAGGTTGCGCGCTCCTTATGAGAATCTAATGCCTGATGATCTGTCACTGTCTCCCATCACCCCCAGATGGGACCGTCTAGTTGCAGGAAAACAAGCTCAGGGCTCCCACTGATTCTACATTATGGTGAGTTGTATAATTATTTCATTATATATTACAATGTAATAATAATAGAAATAAAGTGCACAATAAATGTAATGCGCTTGAATCATCCCGAAACCATCCCCCCCACCCCCGGTCCGTGGAAAAATTGTCTTCCACGAAACCGGTCCCTGGTGCCAAAAAGGTTGGGGACCGCTG

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
MER1A	ZNF281	9	18	-	14.00	GGGGGTTGGG
MER1A	ARALYDRAFT_897773	519	527	+	13.97	GGGGACCGC
MER1A	Zm00001d020595	169	178	+	13.96	AGCGGCGGCA
MER1A	Klf15	450	471	+	13.96	CATCCCCCCCACCCCCGGTCCG
MER1A	Zic1::Zic2	67	73	+	13.93	CAGCAGG
MER1A	KLF14	456	464	-	13.80	GGGGTGGGG
MER1A	l(3)neo38	453	459	+	13.75	CCCCCCC
MER1A	TCP13	517	527	+	13.75	TTGGGGACCGC
MER1A	Zic3	67	73	+	13.70	CAGCAGG
MER1A	SPT15	377	387	-	13.68	GTAATATATAA

1 2 3 4 5 6 7 ... 33

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).