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	Clamp	85	98	+	18.94	GGGCGAGCGAGCGA
MER1A	PATZ1	455	465	-	17.64	GGGGGTGGGGG
MER1A	ZNF281	456	465	-	17.16	GGGGGTGGGG
MER1A	Klf15	443	464	+	16.98	CCGAAACCATCCCCCCCACCCC
MER1A	Zic2	65	73	+	16.82	CACAGCAGG
MER1A	ZNF610	116	125	+	16.46	CAGCCGCTCC
MER1A	ZKSCAN5	72	80	+	16.46	GGAGGTGAG
MER1A	ZIC1	65	78	-	16.40	CACCTCCTGCTGTG
MER1A	Nrf1	214	225	+	16.08	CTGCGCATGCGA
MER1A	ZNF707	456	470	+	15.84	CCCCACCCCCGGTCC

1 2 3 4 ... 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).