HERVH

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0000183
TE superfamily	ERV1
TE class	LTR
Species	Catarrhini
Length	7713
Kimura value	5.61
Tau index	0.8930
Description	Internal region of ERV1 endogenous retrovirus, HERVH subfamily
Comment	The long terminal repeat associated with HERVH is LTR7. The putative env gene, consisting of about 1800 base pairs, has two open reading frames interrupted by a termination codon. The amino acid sequence of this region shows significant homology to those of other retroviral envelope proteins and contains eight potential glycosylation sites. It is estimated that there are about 100 copies of RTVL-H elements containing the env gene per haploid human genome. Note that this estimate is distinct from simply tallying all hits (long and short) from this model.
Sequence	TTTGGTGCCGTGACTCGGATCGGGGGACCTCCCTTGGGAGATCAATCCCCTGTCCTCCTGCTCTTTGCTCCGTGAGAAAGATCCACCTACGACCTCAGGTCCTCAGACCGACCAGCCCAAGGAACATCTCACCAATTTCAAATCCGGTAAGCGGCCTCTTTTTACTCTCTTCTCCAACCTCCCTCACTATCCCTCAACCTCTTTCTCCTTTCAATCTTGGCGCCACACTTCAATCTCTCCCTTCTCTTAATTTCAATTCCTTTCATTTTCTGGTAGAGACAAAGGAGACACGTTTTATCCGTGGACCCAAAACTCCGGCGCCGGTCACGGACTGGGAAGGCAGCCTTCCCTTGGTGTTTAATCATTGCAGGGACGCCTCTCTGATTATTCACCCACGTTTCAGAGGTGTCAGACCACGCAGGGACGCCTGCCTTGGTCCTTCACCCTTAGCGGCAAGTCCCGCTTTTCTGGGGGAGGGGCAAGTACCCCAACCCCTTCTCTCCGTGTCTCTACCCCTTCTCCGCTTTTCTGGGGNAGGGGCAAGNACCCCTCAACCCCTTCTCCTTCACCCTTAGCGGCAAGTCCCGCTTTTCTAGGGGGGCAAGAACCCCCAACCCCTTATTTCCGCGCCCCGACCTCTTATCTCTGCGCCCCAATCCCTTATTTCCGCGCCCCGACCTCTTATCTCTGCGCCCCGATCCCTTATTTCCGCGCCCCGACCTCTTATCTCTGCGCCCCAACCCCTTATTTCCGTGCCCCGACCCCTTTCCCGCTTTTCTGGAGGGCAAGAACCCCCGAACCCCTTCCCTCCGTGTCTCTACTCTCTCTTTTCTCTGGGCTTGCCTCCTTCACTATGGGCAACCTTCCACCCTCCATTCCTCCTTCTCCCTTAGCCTGTGTTCTCAAGAACTTAAAACCTCTTCAACTCACACCTGACCTAAAACCTAAACGCCTTATTTTCTTCTGCAATGCCGCTTGACCCCAATACAAACTCGACAGTAGTTCCAAATAGCCAGAAAACGGCACTTTCAATTTTTCCATCCTACAAGATCTAAATAATTCTTGTCGTAAAATGGGCAAACGGTCTGAGGTGCCTGACGTCCAGGCATTCTTTTACACATCGGTCCCTCCCTAGTCTCTGTNCCCAGTGCAACTCGTCCCAAATCTTCCTTCTTTCCCTCCCGCCTGTCCCCTCAGTCCCAACCCCAAGCGTCGCTGAGTCTTTCTAATCTTCCTTTTCTACAGACCCATCTGACCTCTCCCCTCCTCGCCAGGCCGAGCTAGGTCCCAATTCTTCCTCAGCCTCCGCTCCTCCACCCTATAATCCTTTTATCACCTCCCCTCCTCACACCCGGTCCGGCTTACAGTTTCGTTCCGTGACTAGCCCTCCCCCACCTGCCCAGCAATTTACTCTTAAAAAGGTGGCTGGAGCTAAAGGCATAGTCAAGGTTAATGCTCCTTTTTCTTTATCCGNNNNNTCCCAAATCAGATAGCGTTTAGGCTCTTTTTCATCAAATATAAAAANCCCAGCCCAGTTCATGGCTCGTTTGGCAGCAACCCTGAGACGCTTTACAGCCCTAGACCCTAAAAGGTCAAAAGGCCGTCTTATTCTCAATATACATTTTATTACCCAATCTGCTCCCGACATTAAATAAAACTCCAAAAATTAAATTCCGGCCCTCAAACCCCACAACAGGACTTAATTAACCTCGCCTTCAAGGTGTACAATAATAGAAAAAAGTTGCAATTCCTTGCCTCCACTGTGAGACAAACCCCAGCCACATCTCCAGCACACAAGAACTTCCAAACGCCTGAACCGCAGCGGCCAGGCGTTCCTCCAGAACCTCCTCCCCCAGGAGCTTGCTACAAGTGCCGGAAATCTGGCCACCGGGCCAAGGAATGCCCGCAGCCCGGGATTCCTCCTAAGCCGCGTCCCATCTGTGCGGGACCCCACTGGAAATCGGACTGTTCAACTCACCTGGCAGCCACTCCCAGAGCCCCTGGAACTCTGGCCCAAGGCTCTCTGACTGACTCCTTCCCAGATCTTCTCGGCTTAGCGGCTGAAGACTGACGCTGCCCGATCGCCTCGGAAGCCCCCTGGACCATCACGGACGCTTCGGGTAACTCTCACAGTGGAGGGTAAGTCCGTCCCCTTCTTAATCAATACGGAGGCTACCCACTCCACATTACCTTCTTTTCAAGGGCCTGTTTCCCTTGCCTCCATAACTGTTGTGGGTATTGACGGCCAGGCTTCTAAACCTCTTAAAACTCCCCAACTCTGGTGCCAACTTAGACAATACTCTTTTAAGCACTCCTTTTTAGTTATCCCCACCTGCCCAGTTCCCTTATTAGGCCGAGACACTTTAACTAAATTATCTGCTTCCCTGACTATTCCTGGACTACAGCCACATCTCATTGCCGCCCTTCTCCCCAATCCAAAGCCTCCTTCGCGTCCTCTTGTATCCCCCCACCTTAACCCACAAGTATAAGATACCTCTACTCCCTCCTTGGCGACCGATCATGCACCCCTTACCATCTCATTAAAACCTAATCACCCTTACCCCGCTCAACGCCAATATCCCATCCCACAGCACGCTTTAAAAGGATTAAAGCCTGTTATCACTCGCCTGCTACAGCATGGCCTTTTAAAGCCTATAAACTCTCCTTACAATTCCCCCATTTTACCTGTCCTAAAACCAGACAAGCCTTACAGGTTCAGGATCTGCGCCTTATCAACCAAATTGTTTTGCCTATCCACCCCGTGGTGCCAAACCCATATACTCTCCTATCCTCAATACCTCCCTCCACAACCCATTATTCTGTTCTGGATCTCAAACATGCTTTCTTTACTATTCCTTTGCACCCTTCATCCCAGCCTCTCTTCGCTTTCACTTGGACTGACCCTGACACCCATCAGGCTCAGCAAATTACCTGGGCTGTACTGCCGCAAGGCTTCACAGACAGCCCCCATTACTTCAGTCAAGCCCTTCCTCATGATTTACTTTCTTTCCACCCCTCCGCTTCTCACCTTATTCAATATATTGATGACCTTCTNCTTTGTAGCCCCTCCTTTGAATCTTCTCAACAAGACACNCTNCTGCTCCTTCANCATTTATTCTCCAAAGGATATCCCCCTCCAAAGCCCAAATTTCTTCCTCATCTGTTACCTATCTCGGCATAATTCTTCATAAAAACACACGTGCTCTCCCTGCCGATCGTGTCCGACTGATCTCTCAAACCCCAACCCCTTCTACAAAACAACAACTCCTTTCCTTCCTAGGCATGGTTGGATACTTTCGCCTTTGGATACCTGGTTTTGCCATCCTAACAAAACCATTATATAAACTCACAAAAGGAAACCTAGCTGACCCCATAGATCCTAAATCCTTTCCCCACTCCTCTTTCCGTTCCTTGAAGACAGCTTTAGAGACTGCCCCCACCCTAGCTCTCCCTGACTCATCCCAACCCTTTTCATTACACACAGCCGAAGTGCAGGGCTGTGCAGTCGGAATTCTTACACAAGGACCGGGACCGCGCCCTGTAGCCTTTTTGTCCAAACAACTTGACCTTACTGTTTTAGGCTGGCCATCATGTCTCCGTGCGGCGGCTGCCGCCGCCCTAATACTTTTAGAGGCCCTCAAAATCACAAACTATGCTCAACTCACTCTCTACAGTTCTCATAACTTCCAAAATCTATTTTCTTCCTCACACCTGACGCATATACTTTCTGCTCCCCGGCTCCTTCAGCTGTACTCACTCTGTTGAGTCTCCCACAATTACCATTGTTCCTGGCCCGGACTTCAATCCGGCCTCCCACATTATTCCTGATACCACACCTGACCCCCATGACTGTATCTCTCTGATCCACCTGACATTCACCCCATTTCCCCATATTTCCTTCTTTCCTGTTCCTCACCCTGATCACACTTGGTTTATTGATGGCAGTTCCACCAGGCCTAATCGCCACACACCAGCAAAGGCAGGCTATGCTATGAACTCGTTGCCTTAACTCGAGCCCTCACTCTTGCAAAGGGACTACGCGTCAATATTTATACTGACTCTAAATATGCCTTCCATATCCTGCACCACCATGCTGTTATATGGGCTGAAAGAGGTTTCCTCACTACGCAAGGGTCCTCCATCATTAATGCCTCTTTAAAAAAACTCTTCTCAAGGCCGCTTTACTTCCAAAGGAAGCTGGAGTCATTCACTGCAAGGGCCATCAAAAGGCATCAGATCCCATCGCTCAGGGCAACGCTTATGCTGATAAGGTAGCTAAAGAAGCAGCTAGCGTTCCAACTTCTGTCCCTCACGGCCAGTTTTTCTCCTTCTCATCGGTCACTCCCACCTACTCCCCCGCTGAAACTTCCACCTATCAATCTCTTCCCACACAAGGCAAATGGTTCTTGGACCAAGGAAAATATCTCCTTCCAGCCTCACAGGCCCATTCTATTCTGTCGTCATTTCATAACCTCTTCCATGTAGGTTACAAGCCGCTAGCCCGCCTCTTAGAACCTCTCATTTCCTTTCCATCGTGGAAATCTATCCTCAAGGAAATCACTTCTCAGTGTTCCATCTGCTATTCTACTACTCCTCAGGGATTGTTCAGGCCCCCTCCCTTCCCTACACATCAAGCTCGGGGATTTGCCCCCGCCCAGGACTGGCAAATTGACTTTACTCACATGCCCCGAGTCAGGAAACTAAAATACCTCTTGGTCTGGGTAGACACTTTCACTGGATGGGTAGAGGCCTTTCCCACAGGGTCTGAGAAGGCCACCGCGGTCATTTCTTCCCTTCTGTCAGACATAATTCCTCGGTTTGGCCTTCCCACCTCTATACAGTCCGATAACGGACCGGCCTTTATTAGTCAAATCAGCCAAGCAGTTTCTCAGGCTCTTGGTATTCAGTGAAACCTTTATATCCCTTACGGTCCTCAGTCTTCAGGAAAGGTAGAACGGACTAATGGTCTTTTAAAAACACACCTCACCAAGCTCAGCCACCAACTTAAAAAGGACTGGACAATACTTTTACCACTTTCCCTTCTCAGAATTCGGGCCTGTCCTCGGAATGCTACAGGGTACAGCCCATTTGAGCTCCTGTATGGACGCTCCTTTTTATTAGGCCCCAGTCTCATTCCAGACACCAGACCTCTAGGCGACTATCTTCCAGTCCTCCAGCAGGCTAGACAGGAAATTCGCCAGGCTGCTAATCTTCTCTTGCCTACTCCAGATCCCCAGCCATATGAAGACACCCTAGCTGGACGATCAGTTCTTGTTAAGAATCTGACCCCTCAAACTCTACAACCTCGATGGACCGGACCCTACTTAGTCATCTATAGTACCCCGACTGCCGTCCGCCTGCAGGATCCTCCCCACTGGGTTCACCGTTCCAGAATAAAGCTGTGTCCGTCGGACAGCCAGCCTAATCCCTCCTCTTCCTCCTGGAAGTCGCAAGTACTCTCCCCTACTTCCCTTAAACTCACTCGCATTTCTGAAGAACAGTAATAACCCTTATGAGCCTAATACATCCCTTCATTCTATTAGGTCTGTTCGTCCTTACCCTACTTTTTGCAACAGGGCTTTACGNAGTCACCCCCACCACTTGGACCGAGCCCCAAAAAACTTGTCATCCCTACTATCTTCTGTCTAGTCATACTCCTATTCNCCGTTCTCAACTACTCATAAATGCCCTACTCTTGTTTACACTGCCGGTTTACACTGTTTCTCCAAGCCATCACAGCTGATATCTCCTGGTGCTATCCCCAAACCGCCACTCTTAACTCCCTCTTAGAGTGGATAGATGATCTTTGCTGGCAGGGCACCCTCCAATACTTTCACCCTGATGAAGTTCTATTCTTTACTTTTATACTCACTCTTATTCTCATTCCCATTCTTATGCCACCCTCTACCTCTCCCCAGCTATCTCCACCACACTATCAACCTTACCCATTCTCTCCTAGCCGTTTCTAATCCCTCCTTAGCGAACAACTGCTGGCTTTGCATTTCCCTTTCTTCCAGCGCCTACACAGCTGTCCCCGCCTTACANACAGACTGGGCAACATCTCCTGTCTCCCTACACCTCCGAACTTCCTTTAACAGCCCTCACCTTTACCCTCCTGAAGAACTCATTTACTTTCTAGACAGGTCCAGCAAGACCTCCCCAGACATTTCACATCAGCAAGCTGCCGCCCTCCTCCGCACTTACTTAAAAAACCTTTCTCCTTATATCAACTCTACTCCCCCCATATTTGGACCTCTCACAACACAAACTACTATTCCTGTGGCCGCTCCTTTATGTATCTCTCGGCAAAGACCCACTGGAATTCCCCTAGGTAACCTTTCACCTTCTCGATGTTCCTTTACTCTTCATCTCCGAAGCCCAACTACACACATCACTGAAACAATTGGAGCCTTCCAGCTCCATATTACAGACAAGCCCTCTATCAATACTGGCAAACTTAAAAACATTAGCAGTAATTATTGCTTAGGAAGACACTTACCCTGTATTTCACTCCATCCTTGGCTACCTTCCCCTTGCTCGTCAGACTCTCCTCCCAGGCCCTCTTCTTGTTTACTTATACCCAGCCCCGAAAATAACAGTGAAAGGTTGCTCGTAGATACTCAACGTTTTCTCATACACCATGAAAATCGAACCTCCCCCTCTACGCAGTTACCCCATCAGTCCCCATTACAACCTCTGACGGCTGCCGCCCTAGCTGGATCCCTAGGAGTCTGGGTACAAGACACCCCTTTCAGCACTCCTTCTCATCTTTTTACTTTGCATCTCCAGTTTTGCCTCGCACAAGGTCTCTTCTTCCTCTGTGGATCCTCTACCTACATGTGTCTACCTGCTAATTGGACAGGCACATGCACACTAGTTTTCCTTACCCCCAAAATTCAATTTGCAAATGGGACCGAAGAGCTCCCTGTTCCCCTCATGACACCGACACGACAAAAAAGAGTTATTCCACTAATTCCCTTGCTNGTCGGTTTAGGACTTTCTGCCTCCACTATTGCTCTCGGTACTGGAATAGCAGGCATTTCAACCTCTGTCACGACCTTCCGTAGCCTCTCTAATGACTTCTCTGCTAGCATCACAGACATATCACAAACTTTATCAGTCCTCCAGGCCCAAGTTGACTCTTTAGCTGCAGTTGTCCTCCAAAACCGCCGAGGCCTCGACTTACTCACTGCTGAAAAAGGAGGACTCTGTATATTCTTAAATGAAGAGTGTTGTTTTTACCTAAATCAATCTGGCCTGGTGTATGACAACATAAAAAAACTCAAGGATAGAGCCCAAAAACTCGCCAACCAAGCAAGTAATTACGCTGAACCCCCTTGGGCACTCTCTAATTGGATGTCCTGGGTCCTCCCAATTCTTAGTCCTTTAATACCCGTTTTTCTCCTTCTCTTATTCGGACCTTGTGTCTTCCGTTTAGTTTCTCAATTCATNCAAAACCGTATCCAGGCCATCACCAATCATTCTATACGACAAATGCTCCTTCTAACAACCCCACAATATCACCCCTTACCACAAAATCTTCCTTCAGCTTAATCTCTCCCACTCTAGGTTCCCACGCCGCCCCTAATCCCGCTCGAAGCAGCCCTGAGAAACATCGCCCATTATCTCTCNNCATACCACCCCCCAAAAATTTTCGCCGCCCCAACACTTCANCACTATTTTATTTTTCTTATTAATATAAGAAGACAGGAA

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
HERVH	ZNF281	470	479	+	20.07	GGGGGAGGGG
HERVH	ZNF93	3605	3618	-	19.17	GGCGGCGGCAGCCG
HERVH	EREB29	3610	3619	+	19.06	GCCGCCGCCC
HERVH	ZNF148	470	479	-	18.97	CCCCTCCCCC
HERVH	Zm00001d049364	3608	3618	+	18.57	CTGCCGCCGCC
HERVH	Wt1	1386	1395	+	18.54	CCTCCCCCAC
HERVH	PATZ1	470	480	+	18.42	GGGGGAGGGGC
HERVH	NR2C2	1253	1266	-	18.39	GAGGGGAGAGGTCA
HERVH	ZNF75A	4749	4760	+	17.93	GCCTTTCCCACA
HERVH	KLF3	3530	3539	+	17.74	GACCGCGCCC

1 2 3 4 ... 351

TFBS enrichment in GRCh38

Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.

GTEx

The promoter activity across 46 body sites from The Genotype-Tissue Expression (GTEx) project.

TCGA

The promoter activity across 33 cancer types from The Cancer Genome Atlas (TCGA).