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	KLF5	455	464	+	14.78	CCCCCACCCC
MER1A	ZIC5	64	78	-	14.77	CACCTCCTGCTGTGC
MER1A	Spps	149	159	+	14.75	GCTCCGCCTCC
MER1A	ZNF740	452	461	+	14.71	TCCCCCCCAC
MER1A	KLF16	455	465	+	14.67	CCCCCACCCCC
MER1A	KLF1	456	463	-	14.64	GGGTGGGG
MER1A	ARF10	279	289	-	14.50	GATGGGAGACA
MER1A	ZNF610	77	86	-	14.39	CCGCCGCTCA
MER1A	PDR1	467	476	-	14.09	TTCCACGGAC
MER1A	ZNF740	453	462	+	14.09	CCCCCCCACC

1 2 3 4 5 6 ... 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).