Variant report

Variant	rs1931989
Chromosome Location	chr6:142586578-142586579
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	HDAC2	chr6:142586567-142587107	HepG2	liver:	n/a	chr6:142587047-142587061 chr6:142587043-142587057
2	TCF7L2	chr6:142586508-142587272	HepG2	liver:	n/a	chr6:142586782-142586792
3	HNF4A	chr6:142586508-142587037	HepG2	liver:	n/a	chr6:142586782-142586797 chr6:142586781-142586796 chr6:142586782-142586797 chr6:142586782-142586797 chr6:142586782-142586797
4	FOXA2	chr6:142585784-142587417	HepG2	liver:	n/a	n/a
5	HNF4A	chr6:142586538-142587041	HepG2	liver:	n/a	chr6:142586782-142586797 chr6:142586781-142586796 chr6:142586782-142586797 chr6:142586782-142586797 chr6:142586782-142586797
6	MBD4	chr6:142586498-142587132	HepG2	liver:	n/a	n/a
7	HDAC2	chr6:142586567-142587117	HepG2	liver:	n/a	chr6:142587047-142587061 chr6:142587043-142587057
8	FOXA1	chr6:142586460-142587193	HepG2	liver:	n/a	n/a
9	EP300	chr6:142586504-142587040	HepG2	liver:	n/a	chr6:142586940-142586954
10	TEAD4	chr6:142586331-142587268	HepG2	liver:	n/a	n/a
11	FOXA2	chr6:142586553-142587066	HepG2	liver:	n/a	n/a
12	EP300	chr6:142586514-142587188	HepG2	liver:	n/a	chr6:142587046-142587060 chr6:142586940-142586954
13	MYBL2	chr6:142586542-142587069	HepG2	liver:	n/a	n/a
14	FOXA1	chr6:142586577-142587132	HepG2	liver:	n/a	n/a
15	HNF4G	chr6:142586523-142587016	HepG2	liver:	n/a	chr6:142586782-142586797 chr6:142586780-142586795 chr6:142586782-142586797 chr6:142586782-142586797 chr6:142586782-142586797
16	SP1	chr6:142586555-142587154	HepG2	liver:	n/a	n/a
17	HNF4G	chr6:142586550-142587059	HepG2	liver:	n/a	chr6:142586782-142586797 chr6:142586780-142586795 chr6:142586782-142586797 chr6:142586782-142586797 chr6:142586782-142586797
18	MYBL2	chr6:142586356-142587462	HepG2	liver:	n/a	n/a
19	FOXA1	chr6:142586495-142587134	HepG2	liver:	n/a	n/a
20	ARID3A	chr6:142586129-142587104	HepG2	liver:	n/a	n/a
21	NFIC	chr6:142586179-142587152	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000266843	TF binding region

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1475772	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1931990	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2328322	1.00[ASN][1000 genomes]
rs2782533	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2782538	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2795303	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2795306	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7745188	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9321859	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9484606	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9496306	0.98[ASN][1000 genomes]
rs9496309	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv5511	chr6:142550032-142594960	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv830825	chr6:142585242-142752575	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1931989	HIVEP2	cis	lymphoblastoid	seeQTL

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142581200-142586600	Weak transcription	Liver	Liver
2	chr6:142583200-142590200	Weak transcription	Aorta	Aorta
3	chr6:142586400-142587600	Flanking Active TSS	HepG2	liver

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