Variant report

Variant	rs60173221
Chromosome Location	chr9:3177483-3177484
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	EP300	chr9:3177441-3177652	HepG2	liver:	n/a	n/a
2	MYBL2	chr9:3177253-3177725	HepG2	liver:	n/a	n/a
3	EP300	chr9:3177269-3177789	HepG2	liver:	n/a	n/a
4	RAD21	chr9:3177362-3177641	HepG2	liver:	n/a	n/a
5	FOXA2	chr9:3177069-3178002	HepG2	liver:	n/a	n/a
6	MAX	chr9:3177289-3177795	HepG2	liver:	n/a	n/a
7	CEBPB	chr9:3177376-3177660	HepG2	liver:	n/a	n/a
8	TCF7L2	chr9:3177213-3177673	HepG2	liver:	n/a	n/a
9	ARID3A	chr9:3177356-3177704	HepG2	liver:	n/a	n/a
10	EP300	chr9:3177297-3177780	HepG2	liver:	n/a	n/a
11	FOXA1	chr9:3177243-3177827	HepG2	liver:	n/a	n/a
12	FOXA1	chr9:3177334-3177753	HepG2	liver:	n/a	n/a
13	RCOR1	chr9:3177447-3177647	HepG2	liver:	n/a	n/a
14	NFIC	chr9:3177277-3177759	HepG2	liver:	n/a	n/a
15	HDAC2	chr9:3177368-3177722	HepG2	liver:	n/a	n/a
16	MAZ	chr9:3177342-3177688	HepG2	liver:	n/a	n/a
17	HNF4A	chr9:3177330-3177741	HepG2	liver:	n/a	chr9:3177572-3177587
18	ELF1	chr9:3177276-3177579	HepG2	liver:	n/a	chr9:3177391-3177402
19	HDAC2	chr9:3177320-3177740	HepG2	liver:	n/a	n/a
20	SP1	chr9:3177247-3177800	HepG2	liver:	n/a	n/a
21	HNF4A	chr9:3177421-3177779	HepG2	liver:	n/a	chr9:3177572-3177587
22	YY1	chr9:3177447-3177768	HepG2	liver:	n/a	n/a
23	FOXA1	chr9:3177246-3177804	HepG2	liver:	n/a	n/a
24	FOXA2	chr9:3177409-3177637	A549	lung:	n/a	n/a
25	NFIC	chr9:3177364-3177656	HepG2	liver:	n/a	n/a
26	FOXA1	chr9:3177311-3177789	HepG2	liver:	n/a	n/a
27	SMC3	chr9:3177335-3177660	HepG2	liver:	n/a	n/a
28	RAD21	chr9:3177348-3177677	HepG2	liver:	n/a	n/a
29	HNF4G	chr9:3177303-3177826	HepG2	liver:	n/a	n/a
30	FOXA2	chr9:3177332-3177700	HepG2	liver:	n/a	n/a
31	HNF4G	chr9:3177326-3177717	HepG2	liver:	n/a	n/a
32	MYBL2	chr9:3177284-3177861	HepG2	liver:	n/a	n/a
33	RXRA	chr9:3177373-3177699	HepG2	liver:	n/a	n/a
34	MBD4	chr9:3177296-3177734	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000236511	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs7035823	0.95[ASN][1000 genomes]
rs73377959	1.00[ASN][1000 genomes]
rs73642607	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73642608	1.00[ASN][1000 genomes]
rs73642609	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73642610	1.00[AMR][1000 genomes]
rs73642611	0.95[ASN][1000 genomes]
rs73642612	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892085	chr9:2937654-3215842	Flanking Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv892086	chr9:3012276-3410838	Bivalent Enhancer ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1017474	chr9:3019068-3247215	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv892088	chr9:3019383-3215842	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1028668	chr9:3139007-3262791	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv539939	chr9:3139007-3262791	Bivalent Enhancer Strong transcription Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv1032921	chr9:3139007-3502815	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
8	nsv539940	chr9:3139007-3502815	Strong transcription Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:3174400-3178200	Enhancers	Primary hematopoietic stem cells	blood
2	chr9:3175400-3178200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr9:3175400-3178200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr9:3175600-3177600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:3175600-3177800	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr9:3176400-3178200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr9:3176400-3178200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr9:3176600-3177800	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr9:3176800-3178400	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr9:3176800-3178600	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr9:3177000-3177800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr9:3177200-3177600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr9:3177200-3177800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:3177200-3177800	Enhancers	Fetal Intestine Small	intestine
15	chr9:3177200-3177800	Enhancers	Stomach Mucosa	stomach
16	chr9:3177200-3177800	Flanking Active TSS	HepG2	liver
17	chr9:3177200-3178000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
18	chr9:3177200-3178400	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr9:3177200-3179600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr9:3177400-3177600	Enhancers	Fetal Lung	lung
21	chr9:3177400-3177600	Enhancers	Rectal Mucosa Donor 29	rectum
22	chr9:3177400-3177600	Enhancers	Stomach Smooth Muscle	stomach
23	chr9:3177400-3178000	Enhancers	Adipose Nuclei	Adipose
24	chr9:3177400-3178200	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr9:3177400-3178600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr9:3177400-3178600	Weak transcription	Rectal Mucosa Donor 31	rectum

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