HERV3

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0000169
TE superfamily	ERV1
TE class	LTR
Species	Catarrhini
Length	8426
Kimura value	16.10
Tau index	0.8209
Description	Internal region of an ERV1 endogenous retrovirus, HERV3 subfamily
Comment	The associated LTR is LTR4.
Sequence	TTTCTGGCGAGCCAGCCAGGAGTGGAGACGACAGGTTTGCTGTCTCCTTTGCCTGTGGGNCTGGAGCCCCGGGCCGGGGGAGACCTGTGACCCCAGGCGCCGCCTGGGAGAACTTCAGCCCGGAGGGGAGATCGGCTCTCCCGTGACCCGGCGCCCCTNCCCGGCAGCGCAACGGAACCTAAGGGGCTACAGGACGATTCCAGGAACAGCGCGCTNCAGGACCGCGGTAAGGTTTGGGGCCCAAGGCAGGACCCGTCCCATAAGGACGGAAGGGGAGCCTGATCACCTCCCGGGGTGTANCTAGTAGTCCGACCCAGGAGCTGGGGGCGGCGAGAGTGGCTCGCCAATTCGGATGAAACTTACACCCCAACCAAGAANAGGAACTGGGAGTGGGGAAGTGTGTGAATGCGTGTGAAAGAGGCGGTTCCAGGAGGAGCCAATGCGGGGAGTGACGTGTGGGGCCGCAGGTCTCTTAGCGTGGACCGTACGCTCCGAGCGAAGTGTGGGGCCGACCGGGACTAGTGGCGAACGTCCTCCGNNNCCGCCGCATACGGCTNAGGGAGGCGCCCCACAACTCAGTGATTGTGGTGGTCCGGGTTCGGGGNTNATACGAACCCTCCANTAAAGCTAAGCGGCGTCTGAAAACTCCCGTAAGGGAGACGGTCTAATCGGTCTGAAGCGAAAGTAAAAGAGTGAGTGTGTTGCGCCGTAACTGGGAGGAAATGGGAGGGAAGTCGTCAAAACCCACCCCATTGGAATGCATGTTAAAGAACTTTAAGAAAGGTTNTGCAGGGGATTATGGAGTCAAGTTGACCCCCCAGAGGTTGAGAACTCTCTGTGAATTAGAATGGCCCTCTTTTGGTGTCGGATGGCCGGCCGAAGGAACTATAGATAGGGAAACAATTGGCCGTGTATTTAAGGTGGTGACNGGGGTCGGAGGACAGCCAGGGCACCCAGACCAATTTCCTTATATTGACTCATGGCTAAATATAGTNCAGACNCGACCAGCATGGNTNCAGCCCTGCCTAGCGGCTTATTGCAAAACGCTCGTGGCTCGAGCCGAGCCNAAAGTGAAAGAAAAATCAGCTTCGCCGGCAGCCACGGAGNTAAAGGGAAAGCCACAGGAAGGCAAGAGAAGCCAGTTTTGCAGGAGCCGCCAGAGGAAACAGAAATTCCTCCTCCNTATGTCCCAGCCTACCCCCCTTTACCGAGGCCAACGGCCCCCGAGGAGCCAGATTCAGGNGNTAACACGCCCCAGGTCTCACCCCGAAGGGAAGGATCGGAGCCTCGGGAGGCCAAGGAGGGAAGTCAAGATAGTCAAGCGGGCCGCCTCNGATCTGGCCGCGCCCGAGCTATGCAAATGCCTCTCAGGGAGACGCGAGGACCCGTCTATTATGATGANCAGGGCCANGTCCAAGGGGGGCAACGGACTTTCATCTACCAGCCCTTTTCAACCACTGATCTCCTAAACTGGAAACACCATACTCCCTCCTACACGGAGAAGCCCCAGGCCCTCATAGATCTGATGCAGTCCATCTTTCTGACACACAATCCAACCTGGCCAGACTGCAAGCAGCTCCTCCTGACGCTGTTTAACACCGAGGAGCGCCGGAGGGTGACCCAGGCAGCCCTCCGCTGGCTAGAAGCCAATGCGCCAGAAGGCGCANTTAATGCCCAGGCATACGCTCAGGGCCAGTTCCCAGAAGCAGACCCCNACTGGGACCCAGATGATGCAACCCAGCTTCAGCGTCTGCAGAGGTACCGAGAGGCACTCCTGCAAGGGCTAAGAGANGGCGGAAAAAAGGCAATCAATATAGGAAAGATCTCAGAGGTGCTTCAGGGAGCTGACGAGAGCCCNAGCCAGTTTTATGAGAGACTCTGTGAGGCATTCCGGCTTTACACCCCGTTTGACCCTGAGGCTGCTGAAAATCAGCGCATGGTGAATACGGCATTTGTAGGGCAAGCCCAGGGTGACATCAGGCGGAAGCTGCAGAAGCTAGAAGGTTTCGCAGGCATGAATGCCACCCAGCTTATAGAAGTGGCCACCAAGGTGTACGTTAACCGTGACCAGGAGGCAAAAAGGGAAGCTGATCGGAGGCTTAGGAAAAAGGCCGATCTGCTGGCGGCAGCCCTCACGGAAAGGGAAGCTAGCATCGCGAGGGGACGCGGACGCGGACGCGGACGTGGAAGGGGCCAAGCTGGGCAGAGACCCGAGAGCCGGCCGAGGCTAGANAGGGATCAATGTGCGCGGTGCAAAAAGAAGGGACACTGGAAGGATGAGTGTCCAGAGGGCAATGAAGGAAATGGCCAAGGCCGTGAGACGAGAAGGCCGCCGGCCAAGGGCTGCCGCACCCTGGGGGAACCAGACACCGACCTGATCGGGCTGGCAGGGGCTGAAGGATATGAGGACTAGGACAGACCGGGCTCCNTCTCCTTAGGCCCCCAGGAGCCCATGGTCACATTAGAAGTNGGGGGCCAACTGATGGACTTTATGGTAGACACCGGGGCTGAACACTCGGTAGTGACCCGGCCCATAGGGCCACTATCCAAGAACTATACAACTATTGTNGGGGCTACNGGGGTCCCAGAGAAGAGGCCATTCTGCCGGCCAAGGAGGTGTGTCATAGGAGGACGAGAAGTCCAACATGAATTCCTATACCTCCCAAATTGCCCAGTTCCCTTGCTGGGAAGAGACCTACTCCAAAAACTGCAAGCACAGATTGCTTTTGGGCCGCAAGGGGATATGACTTTAAACCTGACTCACCCAAAGGCCATGGTGTTAACCCTTACCGTCCCGCAGGCTGAGGAATGGAGACTATACGCAAAANAGNCGCCAGAACCGGGANTAAATGAANTGTNTGGGCTACTTAGTAAAATTCCTGGAGTATGGGCTGAAGATAACCCACCCGGGCTGGCTGTAAATCAGGCACCGGTGGTAGTAGAGCTAAAACCGGGAGCAACTCCGGTTCGGGTTCGCCAGTACCCGCTTCCCCGAGAGGCCGTACGGGGCATTCGCAAACACTTAGAGCGGCTCTNCAAACACGGAATCTTAGTCCGATGCCAGTCACCCTGGAACACTCCACTCTTGCCAGTACGGAAGCCAGGGTCTGGTGAATATAGGCCGGTGCAGGACTTGCGTGCTGTAAACCAGGCCACGGTGACCATCCACCCGGTGGTACCAAACCCGTATACTTTAATGGGACTCATTCCGGCAAGTGCCGCCTGGTTTACNNGCCTAGACTTAAAGGATGCNTTCTTCTGTCTCCGCCTGGCACCAATTAGTCAGCCCATCTTTGCATTTCAATGGGACGATTNAGTCACAGGCACAGNGGNGCAGCTCACCTGGACTAGACTCCCACAAGGGTTCAAAAACTCTCCCACAATCTTTGGAGAAGCACTGGCCTCAGACCTCAAGGCCTACACCCCGCCAAATGACAACTGCGCCTTGCTNCAGTACGTAGACGACCTTCTTCTGGCAGCCCCAACCCGAGAGGACTGCTACCAAGGAACCCAAGACCTCCTCCACCTCCTGTGGAAGGCAGGNTATAAAGTGTCCAGGAAGAAGGCTCAAATCTGCCNNGAAAGNGTCAAGTATTTAGGCTTCATAGTAAGCCAAGGGGAACGNCGGCTTGGCAGTGAACGAAAGCAGGCTGTTTGTGCACTTCCNACTCCAACCACCCGGCGTCAAATAAGAGAGTTCTTAGGGGCAGCAGGGTTCTGCCGCATCTGGATCCCAAATTTCTCGCTNATGGCTAAGCCATTATATGAAGCCACAAAGAGGGGGGAAAAGGAGCCCCTCCTCTGGGAGGCCGACCAGGAGAAGGCNTTTAAACAAATCAAAGAAGCCTTAACTCAGGCCCCAGCCTTAGGACTGCCAGATNTAACTAAGCCTTTCTTTCTGTATGTCCACGAGCGAAAGGGAATGGCTATAGGGGTCCTGACTCAAGTCATAGGATCATGGCATCGCCCGGTGGCGTACTTATCCAGGCAATTGGACTCCGTGGCGCTNGGATGGCCTCCTTGCCTTAAGGCACTAGCTGCCACCGCCCTACTGGCACAAGAAGCTAACAAACTGACTCTAGGACAGCAACTGACCATCCGGGTACGCCGCACTCGGTTATAACTTTAATGGACCAGAGAGGGCACCATTGGTTATCAAATCCGAGAATGACTCGGTACCAGGGGCTCCTATGCGAAAATCCCCGCATAACTTTAGAAACNGTGAACACCCTNAACCCGGCTACCTTGCTCCCGATCGAACCGGGAGNCCCCCTTCATNACTGTGTGGANACGGTAGATGAGGTGTTCTCAAGCCGGAGAGATCTNACAGACCGGCCCCTCGGGGACCCGGACGTTGAATACTTCACAGATGGAAGCAGTTTCGTACTAGAAGGGGTCCGCCGAGCCGGGTATGCAGTGGTGACNTTGGACTCAGTGGTAGAGGCNCAGCCTCTGCCTACCGGAACNTCNGCCCAGAAGGCAGAGCTAATAGCCCTGACAAGAGCTCTTTTGCTAGCAAAAGACAAAAAGGTCAATATTTACACNGATTCCAAATATGCTTTTGCCACNTTGCATGTTCATGGGGCTATATACAAAGAAAGAGGACTCTTAACTGCGGAGGGAAAAAGAAATAAAGTACAAGGAAGAAATTCTACAGCTCTTAGATGCTGTATGGGCCCCAAAGAAGGTGGCTGTNATGCACTGCAGGGGGCACCAAAAGGCAGGAACACTAGAGGCCAAAGGAAACAGAAAGGCAGACAGGGAGGCAAAGCGGGCAGCAATGACTACTCCGCATTCTAAAGAGGAAGCCCTAGCTATGCCTCTCCTCCCGGAGNCTCCCCTCCCGGAGATCCCAAGTTACNCTCCAAATGAAAGGGCCTGGTTTGCCCAAGAANCTGGAAANTACATTGAAGGAGGATGGTGGAAATTCTCCGATGGGAGGCTAGCCATNCCTGAAATGGTGGCCCCCAAATTTGTAAAACAATTCCACCAAGGAACTCACATGGGAAAAACGGCACTAGAAACGCTACTAGGACGCCATTTCTATGTGCCACGGCTCACTGCCATCACTCGAGCCGTTTGCGAACAATGTCTAACTTGTGCCCAGAACAACCCACGACAAGGGCCCACTCGGCCCCCCGGGAATTCAGGAAATAGGAGCCACGCCCTGTGAAAACCTGCTTATGGACTTCACCGAACTGCCCCGAGCNGGGGGCTATCGGTACATGCTGGTGCTCGTTTGCACCTTTTCAGGATGGGTCGAGGCTTTCCCCACCAGGACAGAGAAAGCACGAGAAGTGACTAAAGTACTGTTAAGAGACATTATCCCCAGATTTGGACTGCCTCTAACTCTAGGGTCAGACAATGGACCGGCATTTGTAGCTGAAATAGTTCAGGANCTAACACGGCTGTTAAAAATAAAATGGAAGTTACACACAGCCTACCGGCCGCAGAGCTCAGGAAAAGTGGAGCGCATGAACCGGACACTCAAGCAGCTACTGAAGAAATATTGCCAGGAAACTCATCTGAGATGGGATCAGGTCTTGCCCATGGTCCTCCTCCGAGTCAGGTGCACCCCCACCAAACAAACTGGGTATTCGCCCTATGAGATTTTGTTCGGCCGGCCACCCCCAATCATAGGTCAAATTAAAGGTGATCTCCGNGAACTAGGGGAATTAACCTTAAGAAGGCAAATGCAGGCTTTAGGGATAGCCATGCAAAANGTCCATGGCTGGGTACGGGAAAGAATGCCTATAAGCCTGACAGACCCAGCACACCCCTTTAAACCTGGGGACTCTGTTTAGGTTAAGAAATGGAATCCAACCACTCTAGGACCCATATGGGATGGGCCCCATACTGTAATCTTGTCCACTCCCACTGCTGTTAAAGTTGCAGGNATCGTGCCTTGGATCCACCACAGTCGGCTGAAACCGGCAGCCCAGGACAAGTGGACCAGCCAGCAGGACCCAGACCATCCGACCCGGCTGATCCTGCGACGAGACCGAGTTGCCGCTGAGAGACGACGACAGCCCTGCTCTGGTCACTCCGGAAGCTGACCAGTCTACGCACGGCTGAAGCTTGAGGAGACAACAGCCCTGCTCTAGTCACCCCGGAAGCTGACTAGTCTACGCACGGCCGAAGCTTGAGTANTCATCAAGNAAGTAAATGTGGTTAGAAATCTTAAGNCCAGTAGTTTTCCTTGTAATACTAATTGTTTTACTATTGTTCTGTCGCTTTGCTCAACCTCCTCCCCCGGGTAAAGACCTCTTCTGTCCNTGCTGGGTATAAANATGCTACTCTTTACTTNNTTGTTCCGGCGNNCGNNGCTACNNNTTTCCTCCTNATTATGNCACTCCCCTTANCCGTGTCAGAAGAAGAGCCCATAGAAGGGTGCCCCCACTGCACNCACACTACNTGGTCAGGGAGCACNATAACTAGAACCCTGTTGTACCATACTTATTATGAGTGTACAGGGACCCGCCTAGGAACTTGTACTCACAACCAGACGACCTACTCAGTCTGTGACCCAGGAAATGGCCAGCCTTATATATGTTATGACCCCAAGTCCTTACCTGGGACCTGGTTTGAAATTCATGTGGGTCAAAAGAAGGAAACCTTCTAAACCAAACCAAGGTCTCTCCCTCCCACGGGGGGGCTATNTCCTTGTACTTTGATGTTTGCCAGNTAACATCCATGGGCTCAACCTTTCCCGTAATCTCTAGTTCCGNAGAGTACTATAGNAGCTGCCACAAAAATATATGCGCACCCCCTGCTTGCTCCGCCAGGTCCCCAGAAACAGCTTGCTGGGACTGCACAATCGGTCCNCTGACCCGCAATCACCGGGGCCAGTCATGCTTACCAAAATGCCAGCAAAACCAGATTGTAAGACAAGCACTTGCAATCCTGTAAATCTCACCATCTTAAAGCCGGATCTGCCCATATGGACTACAGGTTTANNNGCACCCCGGGANTACAAGTCAGCGGTCAGAAAACNGACCCAGAAGCCTATTTATATATTATCAAGAAANCTCGGACCCGTCCGCCCGANAATTCCAGTCTTTAAGTCATTCTNTGAGCATATNAACCAGAAGTTGCCNGAGCCCCCTCCTTTGCCAGAAACCTATTCGNCGCGNNNCGTTTGCNTGCTCAGCTGGCTGAAAACATNGCCGGCAGCCTAGGCGTCTCCTCATGTTATGTTTGTGGAGGGACCAACATGGGAGACCAATGGCCNTGGGAAGCAAAAGAGTTAATGCCCCAAGATAACTTCACTCTACTGNCTCTTCCCCCGAACCGACGCCCACAAGTTCGAGCGTCTGGCTCTTAAAAACCTCTATTATCGGGAGATNCTGCGTTGCTCGCTGGGGAAAAGCCTTTACAGACCCAGTAGGAGAATTAACCTGCCTAGGACAGCAATATTACAATGAAACACTAGGAAAAACTTTATGGCGGGGCAAAAATAATTCCAAATCGCCCCANCCAAGCCCATTCTCCCGTTTCCCTTCTTTAAACCACTCTTGGTACCAACTTGAAGCTCCAAATACCTGGCAGGCGCCCTCTGGCCTCTACTGGATCTGTGGGCCACGGGCATATCGGCAGTTGCCGGCTAAATGGACAGGGGCCTGTGTACTNGGAACAATTAGGCCGTCTTTCTTCCTAATCCCNCTGNAACAGGGAGAAGCTTTAGGGTACCCCGTCTATGATGAAACTAAAAGGAGAAACAAAAAGAGACATAACCATAGGAAATTGGAAAGACAATNAATGGCCCCCTGAAAGAATAATCCAATACTATGGGCCAGCCACCTGGGCAGAAGATGGGNCGTGGGGATACCGCACCCCTATTTACATGCTCAACCGCATCATAAGGTTGCAGGCAGTGCTTGAAATCATCACTAATGANACNGCAAANGCCTTAGATCTGCTGGCCCAGCAAGCCACAAAAATGAGGAACGCTATCTATCAAAATAGACTGGCTTTAGACTACCTCCTAGCCCAGGAAGGAGGAGTATGTGGAAAGTTCAATCTAACTAATTGCTGCCTAGAAATCGATGACAACGGAAAGGCCATTANGGANATAACTGCAAGAATNCGAAAATTAGCCCATGTTCCAGTCCAGACTTGGAAAGGGTGGTCTCCAGATTCCCTCTTCGGAGGCTGGTTTTCATCCTTCGGAGGATTCAAGACCTTAATAGGAGTAGTTCTGGCCATACTAGGAGNCTGCCTAATACTCCCTTGTCTCTTACCCCTCCTTGTTAGAAGCATTCAATCAGCCATAGAGGCNNTTGTAGCCAGGCAAACTACCACTCAGCTAATGGCTCTAACTAAATATCAACCTTTGCCAAANGAAGAAAACTGCCTCTTCATGAAGAATTAAGTAATAGTGATGCTTTCTATTAAACTTCATTTATAAAAAGCATCAAAGGGGGGAA

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
HERV3	ZNF701	8409	8425	+	18.31	AAGCATCAAAGGGGGGA
HERV3	ZFP14	1291	1305	+	18.17	GGAGGCCAAGGAGGG
HERV3	ZNF675	2065	2083	+	17.72	TGACCAGGAGGCAAAAAGG
HERV3	KLF3	1340	1349	+	17.60	GGCCGCGCCC
HERV3	ZNF135	1288	1301	-	17.59	CCTTGGCCTCCCGA
HERV3	Pou5f1::Sox2	3292	3306	-	17.40	CATTGAAATGCAAAG
HERV3	lmd	812	823	+	17.34	GACCCCCCAGAG
HERV3	DREB2F	4038	4048	+	17.29	CTGCCACCGCC
HERV3	SGR5	4516	4528	+	17.21	GCAAAAGACAAAA
HERV3	Stat2	1163	1172	+	17.16	GAAACAGAAA

1 2 3 4 ... 304

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).