HERV17

Basic information Differential Expression Stage analysis Survival analysis Correlation analysis

DF ID	DF0000628
TE superfamily	ERV1
TE class	LTR
Species	Catarrhini
Length	8839
Kimura value	4.20
Tau index	0.9778
Description	Internal sequence of the class I endogenous retrovirus
Comment	Internal sequence of HERV17 (HERV-W) flanked by LTR17 long terminal repeats. Update on existing entry. Most copies in the seed alignment are processed pseudogenes of ERV transcripts
Sequence	TTTGGTGGCCCACGAAGGGACTCTCCAAAGCGGTGAGTAATATTGGACCACTTTCGCTTGCTATTCTGTCCTATCCTTCCTTAGAATTGGAGGAAAATACCGGGCACCTGTCGGCCGGTTAAAAACGATTAGCGTGGCCGCCGGACTTAAGACTCAGGTGTGAGGCTNTCTGGGGAAGGGCTTTCTAACAACCCCCAACCCTTCTGGGTTGGGAGCGTTGGTCTGCCTGGAACCAGCTTCCGCTTTCAATTTTCCTGGGGGAAGCCGAGGGCCGACTAGAGGCAGAAAGCTGTCGTCCCGAACTCCCGGCATTAGCCGGTTGAGATCATGGCGCAGCCAGAAGTCTCTACTCAACAGTCGCCCATGCGTGCGCCCCTACCTTTCCTTCTGACCCATACCTCCTGGGTCCCGACCACGACTTTCTTGAAAGTGTAGCCCCAAAATTCTCCTTACCTCTGAATCTACTTCCTCCGATCCCTGCCTCCTAGGTACTAATGGTTCAGACTTTCATTTCCTCTCCCAAGTATTAGAGCAAGTTGTATCTCCAAAGGGATCTAAGGAAGCTCTACGCTGCGTCCTTAGGCACCTAGGCTATGAACCCAGGGAGTCTTGTCCCTGGTGTCCCTCCCGATTTAGGTATACAGCTCTCGACATGGGCAGTTATGTGGGACCCGTTCCCCACCACCCTTGCCAGGGCCCCAAGTTTGTAAATGGCTAAGAGGATTGCTCTCCCATTGTGTAAGATGCTCTCCTCCCCCAATTTCTACCCAGCTTACCCCTCTGCAATACAATCTCCAAGCCTTGGCTCCTTGGCCAGGGCCTTAGAACTGATGACCCAGTACTTTAACAACTGGAACTGGGTCTACGACAACATAATAGATCAGGATGAAAGCGAATTGAGTAAATTAAAGGGAGGCGCATATTCCTATAGTGGCAAATGGGGGCAACGAGCGAACGTCCTTCCGCTGTGTTTCCAAAATCCATCTACAGAGACAGAGAGGAGAGAGAGAGAGAGAGAGAAGAGAGAGAGAGAAAGAGAGAAAGAGAGAGATAGAAGTAGTAAAGAAAAAACAGTGTGCCCTATTCCTTTAAAAGCCAGGGTAAATTTAAAACCTATAATTGATAATTGAAGGTCTTCTCCGTGACCCTATAACACTCCAATACTACCTTGTTGTCAGTGTAAACAAGGGCGTAGCCCGAAAGCACTGAGACCACTGACAACCCGTAGCCTTCCTATCAAAAATCCTTAACCCAGTAACCCGCGGATGGCCCAAATGCATTCAATCTGTAGCGGCAACTGCTTTGCTAACAGAAGAAAGTAGAAAAGTAACTTTTAGAGGAAACCTCATTGTGAGCACACCTCACCAGTTCAGAACTATCCTAAGTCAAAAAAGCAAAAAGGTAGCTTACTAACTCAAAAATCTTAAAGTATGGGGCTATTCTGTTAGAAAAAGGTGATTTAACACTAACCACTGAAAATTCCCTTAACCCAGCAGATTTCCTAACAGGGGATTTAAATCTTAATTACCATACAAAGGTCCGACCAGACCTAGGAGGAACTCCCTTCAGGACAGGACGATAGATGGTTCCTCCCAGGTGATTGAGGAAAAAACCACAATGGGTATTCAGTAATTGATAGGGAGACTCTTGTGGAAGCAGAGTTAGGAAAATTGCCTAATAATTGGTCTGCTCAAACGTGCGAGCTGTTTGCACTCAGCCAAGCCTTAAAGTACTTACAGAATCAAAAAACTCTATCTCAATCCTGACTCAAAAGGTTACCTACACCCTCTCTGAAACGAATTTGCATAAGAACTGTTGTTTATGGGAATGCATCTTGATGGGGCAGCTGGGTTGTTATGAAATACTCAGGAACCCAGCCCAGCTCTAGGACTCACCCCTGAGCGCAAAGGCAATGTTGGGCACGCTGGTAAAGGACCACTAGAATCCAGCAGCCCGGACCCCTTTCTTTGTGGTCAAGAAAGGCGGGAAAACGGGTGCAGGACTGCTACATCGGTGAGCGTAACTAATCCGATAAGCAGAGGTCCATGGGTGGTTACGCACCCTGGAAAGGAATAAGCATTAGGACCATAGAGGACGCTCTAGGACTAATGCTCATCGGAAAATGACTAGGGGTGCTGGCATCCCTATGTTCTTTTTTCAGATGGGAAACGTTCCCCCCAAGGCAAAAACGCCCCTAAGATGTATTCTGGAGAATTNGGNCCAGTTTGACCCTCAGACGCTAAGAAAGAAACGACTTATATTCTTCTGCAGTACCGCCTGGCCACGATATCCTCTTCAAGGGGGAGAAACCTGGCCTCCTGAGGGAAGTATAAATTATAACACCATCTTACAGCTAGACCTCTTTTGTAGAAAAGAAGGCAAATGGAGTGAAGTGCCATATGTACAAACTTTCTTTTCATTAAGAGACAACTCGCAATTATGTAAAAAGTGTGATTTATGCCCTACAGGAAGCCCTCAGAGTCTACCTCCCTACCCCGGCGTCCCCCCGACTCCTTCCCCAACTAATAAGGACCCCCCTTCAACCCAAACGGTCCAAAAGGAGATAGACAAAGGGGTAAACAATGAACCAAAGAGTGCCAATATTCCCCGATTATGCCCCCTCCAAGCGGTGGGAGGAGGAGAATTCGGCCCAGCCAGAGTGCATGTACCTTTTTCCCTCTCAGACTTGAAGCAAATTAAAATAGACCTAGGTAAATTCTCAGATAACCCTGATGGCTATATTGATGTTTTACAAGGGTTAGGACAATCCTTTGATCTGACATGGAGAGATATAATGTTACTGCTAGATCAGACACTAACCCCAAATGAGAGAAGTGCCGCCATAACTGCAGCCCGAGAGTTTGGCGATCTCTGGTATCTCAGTCAGGTCAATGATAGGATGACAACAGAGGAAAGAGAACGATTCCCCACAGGCCAGCAGGCAGTTCCCAGTGTAGACCCTCACTGGGACGCAGAATCAGAACATGGAGATTGGTGCCGCAGACATTTGCTAACTTGCGTGCTAGAAGGACTAAGGAAAACTAGGAAGAAGCCTATGAATTATTCAATGATGTCCACTATAACACAGGGAAAGGAAGAAAATCCTACTGCCTTTCTGGAGAGACTAAGGGAGGCATTGAGGAAGCATACCTCTCTGTCACCTGACTCTATTGAAGGCCAACTAATCTTAAAGGATAAGTTTATCACTCAGTCAGCTGCAGACATTAGAAAAAAACTTCAAAAGTCCGCCTTAGGCCCGGAGCAAAACTTAGAAACCCTATTGAACTTGGCAACCTCGGTTTTTTATAATAGAGATCAGGAGGAGCAGGCGGAACGGGACAAACGGGATAAGAAAAAAAAAGGCCACCGCTTTAGTCATGGCCCTCAGGCAAGCGGACTTTGGAGGCTCTGGAAAAGGGAAAGGCTGGGCAAATCGAATGCCTAATAGGGCTTGCTTCCAGTGCGGTCTACAAGGACACTTTAAAAAAGATTGTCCGAATAGAAATAAGCCGCCCCCTCGTCCATGCCCCTTATGTCAAGGGAATCACTGGAAGGCCCACTGCCCCAGGGGACGAAGGTCCTCTGAGTCAGAAGCCACTAACCAGATGATCCAGCAGCAGGACTGAGGGTGCCCGGGGCAAGCGCCAGCCCATGCCATCACCCTCACAGAGCCCCGGGTATGCTTGACCATTGAGGGCCAGGAGGTTAACTGTCTCCTGGACACTGGCGCGGCCTTCTCAGTCTTACTCTCCTGTCCCGGACAACTGTCCTCCAGATCTGTCACTATCCGAGGGGTCCTAGGACAGCCAGTCACTAGATACTTCTCCCAGCCACTAAGTTGTGACTGGGGAACTTTACTCTTTTCACATGCCTTTCTAATTATGCCTGAAAGCCCCACTCCCTTGTTAGGGAGAGACATTCTAGCAAAAGCAGGGGCCATTATACACCTGAACATAGGAGAAGGAACACCCGTTTGTTGTCCCCTGCTTGAGGAAGGAATTAATCCTGAAGTCTGGGCAACAGAAGGACAATATGGACGAGCAAAGAATGCCCGTCCTGTTCAAGTTAAACTAAAGGATTCCGCCTCCTTTCCCTACCAAAGGCAGTACCCCCTTAGACCCGAGGCCCAACAAGGACTCCAAAAGATTGTTAAGGACCTAAAAGCCCAAGGCCTAGTAAAACCATGCAATAGCCCCTGCAATACTCCAATTTTAGGAGTACAGAAACCCAACGGACAGTGGAGGTTAGTGCAAGATCTCAGGATTATCAATGAGGCCGTTGTCCCTCTATACCCAGCTGTACCTAACCCTTATACTCTGCTTTCCCAAATACCAGAGGAAGCAGAGTGGTTTACAGTCCTGGACCTTAAGGATGCCTTTTTCTGCATCCCTGTACATCCTGACTCTCAATTCTTGTTTGCCTTTGAAGATCCTTCGAACCCAACGTCTCAACTCACCTGGACTGTTTTACCCCAAGGGTTCAGGGATAGCCCCCATCTATTTGGCCAGGCATTAGCCCAAGACTTGAGCCAGTTCTCATACCTGGACACTCTTGTCCTTCGGTACGTGGATGATTTACTTTTAGCCGCCCGTTCAGAAACCTTGTGCCATCAAGCCACCCAAGCGCTCTTAAATTTCCTCGCCACCTGTGGCTACAAGGTTTCCAAACCAAAGGCTCAGCTCTGCTCACAGCAGGTTAAATACTTAGGGCTAAAATTATCCAAAGGCACCAGGGCCCTCAGTGAGGAACGTATCCAGCCTATACTGGCTTATCCTCATCCCAAAACCCTAAAGCAACTAAGAGGGTTCCTTGGCATAACAGGCTTCTGCCGAATATGGATTCCCAGGTACGGCGAAATAGCCAGGCCATTATATACACTAATTAAGGAAACTCAGAAAGCCAATACCCATTTAGTAAGATGGACACCTGAAGCAGAAGCGGCTTTCCAGGCCCTAAAGAAGGCCCTAACCCAAGCCCCAGTGTTAAGCTTGCCAACGGGGCAAGACTTTTCTTTATATGTCACAGAAAAAACAGGAATAGCTCTAGGAGTCCTTACACAGGTCCGAGGGACGAGCTTGCAACCCGTGGCATACCTGAGTAAGGAAATTGATGTAGTGGCAAAGGGTTGGCCTCATTGTTTACGGGTAGTGGCGGCAGTAGCAGTCTTAGTATCTGAAGCAGTTAAAATAATACAGGGAAGAGATCTTACTGTGTGGACATCTCATGATGTGAACGGCATACTCACTGCTAAAGGAGACTTGTGGCTGTCAGACAACCGTTTACTTAAATATCAGGCTCTATTACTTGAAGGGCCAGTGCTGCGACTGCGCACTTGTGCAACTCTTAACCCAGCCACATTTCTTCCAGACAATGAAGAAAAGATAGAACATAACTGTCAACAAGTAATTGCTCAAACCTACGCCGCTCGAGGGGACCTTCTAGAGGTTCCCTTGACTGATCCCGACCTCAACTTGTATACTGATGGAAGTTCCTTTGTAGAAAAAGGACTTCGAAAAGCGGGGTATGCAGTGGTCAGTGATAATGGAATACTTGAAAGTAATCCCCTCACTCCAGGAACTAGCGCTCAGCTGGCAGAACTAATAGCCCTCACTCGGGCACTAGAATTAGGAGAAGGAAAAAGGGTAAATATATATACAGACTCTAAGTATGCTTACCTAGTCCTCCATGCCCACGCAGCAATATGGAGAGAAAGGGAATTCCTAACTTCCGAGGGAACACCTATCAAACATCAGGAAGCCATTAGGAGATTATTATTGGCTGTACAGAAACCTAAAGAGGTGGCAGTCTTACACTGCCGGGGTCATCAGAAAGGAAAGGAAAGGGAAATAGAAGGGAACCGCCAAGCGGATATTGAAGCCAAAAGAGCCGCAAGGCGGGACCCTCCATTAGAAATGCTTATAGAAGGACCCCTAGTATGGGGTAATCCCCTCCGGGAAACCAAGCCCCAGTACTCAGCAGAAGAAATAGAATGGGGAACCTCACGAGGACATAGTTTCCTCCCCTCAGGATGGCTAGCCACCGAAGAAGGAAAAATACTTTTGCCTGCAGCTAACCAATGGAAATTACTTAAAACCCTTCACCAAACCTTTCACTTAGGCATTGATAGCACCCATCAGATGGCCAAATCATTATTTACTGGACCAGGCCTTTTCAAAACTATCAAGCAGATAGTCAGGGCCTGTGAAGTGTGCCAAAGAAATAATCCCCTGCACTTATCGCCAAGCTCCTTCAGGAGAACAAAGAACAGGCCATTACCCAGGAGAAGACTGGCAACTAGATTTTACCCACATGCCCAAATCTCAGGGATTTCAGTATCTACTAGTCTGGGTAGATACTTTCACTGGTTGGGCGGAGGCCTTCCCTTGTAGGACAGAAAAGGCCCAAGAGGTAATAAAGGCACTAGTTCATGAAATAATTCCCAGATTCGGACTTCCCCGAGGCTTACAGAGTGACAATGGCCCCGCTTTCAAGGCTGCAGTAACCCAGGGAGTATCCCAGGCGTTAGGCATACAATATCACTTACACTGCGCCTGGAGGCCACAATCCTCAGGAAAAGTCGAGAAAATGAACGAAACACTCAAACGACATCTAAAAAAGCTAACCCAGGAAACCCACCTCGCATGGCCTGCTCTGTTGCCTATAGCCTTACTAAGAATCCGAAACTCTCCCCAAAAAGCGGGACTTAGCCCATACGAAATGCTGTATGGACGGCCCTTCCTAACCAATGACCTTGTGCTTGACCGAGAGACGGCCAACTTAGTTGCAGACATCACCTCCTTAGCCAAATATCAACAAGTTCTTAAAACATTACAGGGAACCTGTCCCCGAGAGGAGGGAAAGGAATTATTCCACCCTGGTGACATGGTATTAGTCAAGTCCCTTCCCTCTAATTCCCCATCCCTAGATACATCCTGGGAAGGACCCTACCCAGTCATTTTATCTACCCCAACCGCGGTTAAAGTGGCTGGAGTGGAGTCTTGGATACATCACACTCGAGTCAAACCCTGGATACTGCCAAAGGAACCCGAAAATCCAGGAGACAACGCTAGCTATTCCTGTGAACCTCTAGAGGATCTGCGCCTGCTCTTCAAGCGACAACCGTGAGGAAAGTAACTAGAATCGTAGATCCCCATGGCCCTCCCTTGTCATATTTTTCTCTTTACTGTTCTCTTACCCCCTTTCACTCTCACTGCACCCCCTCCATGCCGCTGTACTACCAGTAGCTCCCCTTACCAAGAGCTTCTATGGAGAATGCGGCTTCCCGGAAATATTGATGCCCCATCGTATAGGAGTTTTTCTAAAGGAAACCCCACTTTCACCGCCCACACCCATATGCCCCGCAACTGCTATAACTCTGCCACTCTTTGCATGCATGCAAATACTCATTATTGGACAGGGAAAATGATTAATCCTAGTTGTCCTGGAGGACTTGGAGCCACTGTCTGTTGGACTTACTTCACCCATACCGGTATGTCTGATGGGGGTGGAGTTCAAGATCAGGCAAGAGAAAAACACGTAAAGGAAGTAATCTCCCAACTGACCCGGGTACATAGCACCCCTAGCCCCTACAAAGGACTAGATCTCTCAAAACTACATGAAACCCTCCGTACCCATACTCGCCTGGTAAGCCTATTTAATACCACCCTCACTGGGCTCCATGAGGTCTCGGCCCAAAACCCTACTAACTGTTGGATGTGCCTCCCCCTGCACTNCAGGCCATACATTTCAATCCCTGTATCTGAACAATGGAACAACTTCAGCACAGAAATAAACACCACTTCCGTTTTAGTAGGACCTCTTGTTTCCAATCTGGAAATAACCCATACCTCAAACCTCACCTGTGTAAAATTTAGCAATACTATAGACACAACCAACTCCCAATGCATCAGGTGGGTAACTCCTCCCACACGAATAGTCTGCCTACCCTCAGGAATATTTTTTGTCTGTGGTACCTCAGCCTATCGTTGTTTGAATGGCTCTTCAGAATCTATGTGCTTCCTCTCATTCTTAGTGCCCCCTATGACCATCTACACTGAACAAGATTTATACAATCATGTCGTACCTAAGCCCCGCAACAAAAGAGTACCCATTCTTCCTTTTGTTATCGGAGCAGGAGTGCTAGGCGGACTAGGTACTGGCATTGGCGGTATCACAACCTCTACTCAGTTCTACTACAAACTATCTCAAGAACTAAATGGTGACATGGAACGGGTCGCCGACTCCCTGGTCACCTTGCAAGATCAACTTAACTCCCTAGCAGCAGTAGTCCTTCAAAATCGAAGAGCTTTAGACTTGCTAACCGCCGAAAGAGGGGGAACCTGTTTATTTTTAGGGGAAGAATGCTGTTATTATGTTAATCAATCCGGAATCGTCACCGAGAAAGTTAAAGAAATTCGAGATCGAATACAACGTAGAGCAGAGGAGCTTCAAAACACCGGACCCTGGGGCCTCCTCAGCCAATGGATGCCCTGGATTCTCCCCTTCTTAGGACCTCTAGCAGCTATAATATTGTTACTCCTCTTTGGACCCTGTATCTTTAACCTCCTTGTTAAGTTTGTCTCTTCCAGAATCGAAGCTGTAAAACTACAAATCGTTCTTCAAATGGAGCCCCAGATGCAGTCCATGACTAAGATCTACCGCGGACCCCTGGACCGGCCTGCTAGCCCATGCTCCGATGTTAATGACATCGAAGGCACCCCTCCCGAGGAAATCTCAACTGCACGACCCCTACTACGCCCCAATTCAGCAGGAAGCAGTTAGAGCGGTCGTCGGCCAACCTCCCCAACAGCACTTGGGTTTTCCTGTTGAGAGGGGGATC

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
HERV17	BPC1	1036	1059	+	25.39	GAGAGAAAGAGAGAGATAGAAGTA
HERV17	BPC1	1003	1026	+	24.39	GAGAGAGAGAGAGAGAGAAGAGAG
HERV17	BPC1	1034	1057	+	24.12	AAGAGAGAAAGAGAGAGATAGAAG
HERV17	BPC6	1026	1046	-	22.96	CTCTTTCTCTCTTTCTCTCTC
HERV17	RAMOSA1	1020	1033	+	22.89	AAGAGAGAGAGAGA
HERV17	RAMOSA1	1022	1035	+	22.37	GAGAGAGAGAGAAA
HERV17	BPC6	1018	1038	-	22.24	CTCTTTCTCTCTCTCTCTTCT
HERV17	RAMOSA1	999	1012	+	20.96	AGGAGAGAGAGAGA
HERV17	BPC6	1005	1025	-	20.88	TCTCTTCTCTCTCTCTCTCTC
HERV17	RAMOSA1	1009	1022	+	20.46	GAGAGAGAGAGAAG

1 2 3 4 5 6 7 ... 352

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).