MLT1D

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0001004
TE superfamily	MaLR
TE class	LTR
Species	Eutheria
Length	505
Kimura value	21.70
Tau index	0.8779
Description	MLT1D Long Terminal Repeat for ERVL-MaLR retrotransposon
Comment	MLT1D (Mammalian LTR Transposon) has 5 bp TSDs, and it an intermediate subfamily between MLT1C and MLT1E2. Note that a full-length ERV-MaLR (Mammalian apparent LTR retrotransposon) element is derived from an ERV (Endogenous Retrovirus), but only contains the Gag gene (that is, no Pol or Env).
Sequence	TGTGGTAGGCAGAATAATGGCCCCCCAAAGATGTCCACGTCCTAATCCCCGGAACCTGTGAATATGTTACCTTACATGGCAAAAGGGACTTTGCAGATGTGATTAAGTTAAGGATCTTGAGATGGGGAGATTATCCTGGATTATCCGGGTGGGCCCAATGTAATCACAAGGGTCCTTATAAGAGGGAGGCAGGAGGGTCAGAGTCAGAGAAGGAGATGTGACGACGGAAGCAGAGGTCGGAGTGACGACGTTGCTGGCTTTGAAGATGGAGGAAGGGGCCACGAGCCAAGGAATGCGGGCGGCCTCTAGAAGCTGGAAAAGGCAAGGAAACGGATTCTCCCCTAGAGCCTCCAGAAGGAACGCAGCCCTGCCGACACCTTGATTTTAGCCCAGTGAGACCCATTTCGGACTTCTGACCTCCAGAACTGTAAGATAATAAATTTGTGTTGTTTTAAGCCACTAAGTTTGTGGTAATTTGTTACAGCAGCAATAGGAAACTAATACA

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
MLT1D	TCP23	149	156	-	16.36	GGGCCCAC
MLT1D	DUX4	100	110	-	16.28	TAACTTAATCA
MLT1D	LjSGA_053525.1	149	156	-	16.05	GGGCCCAC
MLT1D	OsI_08196	149	156	-	15.69	GGGCCCAC
MLT1D	ARALYDRAFT_493022	149	156	-	15.63	GGGCCCAC
MLT1D	PLAG1	338	351	-	15.59	GAGGCTCTAGGGGA
MLT1D	ZIPIC	362	371	+	15.45	GCAGCCCTGC
MLT1D	ARALYDRAFT_495258	149	156	-	15.43	GGGCCCAC
MLT1D	ARALYDRAFT_484486	149	156	-	15.43	GGGCCCAC
MLT1D	TCP21	149	159	+	15.18	GTGGGCCCAAT

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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).