MER1A

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0000734
TE superfamily	Charlie
TE order	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	ZNF454	14	30	-	15.54	GGTCCGTGGCCCGGGGG
MER1A	KLF4	456	463	+	15.48	CCCCACCC
MER1A	ewg	216	225	+	15.45	GCGCATGCGA
MER1A	ewg	216	225	-	15.45	TCGCATGCGC
MER1A	ZNF320	276	295	-	15.40	GGGGGTGATGGGAGACAGTG
MER1A	KLF10	456	464	-	15.20	GGGGTGGGG
MER1A	CDF5	395	415	-	15.03	TGCACTTTATTTCTATTATTA
MER1A	LEU3	29	38	+	14.93	CCGGTACCGG
MER1A	LEU3	29	38	-	14.93	CCGGTACCGG
MER1A	ZIC4	65	78	-	14.88	CACCTCCTGCTGTG

1 2 3 4 5 ... 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).