Variant report

Variant	rs9461067
Chromosome Location	chr6:24771689-24771690
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	MYBL2	chr6:24771393-24772079	HepG2	liver:	n/a	n/a
2	FOXA1	chr6:24771370-24771942	HepG2	liver:	n/a	n/a
3	FOXA1	chr6:24771376-24771975	HepG2	liver:	n/a	n/a
4	REST	chr6:24771431-24771886	HepG2	liver:	n/a	n/a
5	TBP	chr6:24771463-24771872	HepG2	liver:	n/a	n/a
6	EP300	chr6:24771366-24771923	HepG2	liver:	n/a	n/a
7	FOXA2	chr6:24771365-24771854	HepG2	liver:	n/a	n/a
8	BHLHE40	chr6:24771548-24771755	HepG2	liver:	n/a	n/a
9	POLR2A	chr6:24771538-24771934	HepG2	liver:	n/a	n/a
10	ARID3A	chr6:24771402-24772126	HepG2	liver:	n/a	n/a
11	TEAD4	chr6:24771234-24771928	HepG2	liver:	n/a	n/a
12	POLR2A	chr6:24771512-24771889	HepG2	liver:	n/a	n/a
13	HNF4A	chr6:24771364-24771857	HepG2	liver:	n/a	chr6:24771646-24771661 chr6:24771661-24771676
14	MBD4	chr6:24771365-24771992	HepG2	liver:	n/a	n/a
15	HEY1	chr6:24771343-24772010	HepG2	liver:	n/a	n/a
16	SMC3	chr6:24771450-24771849	HepG2	liver:	n/a	n/a
17	MAFF	chr6:24771454-24771829	HepG2	liver:	n/a	n/a
18	RCOR1	chr6:24771482-24771837	HepG2	liver:	n/a	n/a
19	NFIC	chr6:24771400-24771882	HepG2	liver:	n/a	n/a
20	MYBL2	chr6:24771314-24772111	HepG2	liver:	n/a	n/a
21	FOXA1	chr6:24771372-24771968	HepG2	liver:	n/a	n/a
22	HNF4G	chr6:24771422-24771856	HepG2	liver:	n/a	chr6:24771662-24771677
23	HNF4A	chr6:24771381-24771871	HepG2	liver:	n/a	chr6:24771646-24771661 chr6:24771661-24771676
24	POLR2A	chr6:24771587-24771832	HepG2	liver:	n/a	n/a
25	JUND	chr6:24771560-24771721	HepG2	liver:	n/a	n/a
26	FOXA1	chr6:24771426-24771952	HepG2	liver:	n/a	n/a
27	SP1	chr6:24771365-24771931	HepG2	liver:	n/a	n/a
28	CEBPB	chr6:24771471-24771753	HepG2	liver:	n/a	n/a
29	JUND	chr6:24771463-24772068	HepG2	liver:	n/a	n/a
30	POLR2A	chr6:24771395-24771933	HepG2	liver:	n/a	n/a
31	EP300	chr6:24771399-24771928	HepG2	liver:	n/a	n/a
32	NFIC	chr6:24771336-24771965	HepG2	liver:	n/a	n/a
33	MAFK	chr6:24771403-24771837	HepG2	liver:	n/a	n/a
34	HDAC2	chr6:24771419-24771864	HepG2	liver:	n/a	n/a
35	ZBTB7A	chr6:24771571-24771773	HepG2	liver:	n/a	n/a
36	HEY1	chr6:24771613-24771895	HepG2	liver:	n/a	n/a
37	EP300	chr6:24771441-24771860	HepG2	liver:	n/a	n/a
38	MXI1	chr6:24771495-24771888	HepG2	liver:	n/a	n/a
39	HNF4A	chr6:24771476-24771881	HepG2	liver:	n/a	chr6:24771646-24771661 chr6:24771661-24771676

No.	Distal block	Cell Line	Cell type
1	chr6:24718549..24722818-chr6:24771512..24777723,8	MCF-7	breast:
2	chr6:24711892..24724164-chr6:24769415..24786834,81	K562	blood:
3	chr6:24715365..24725462-chr6:24770390..24783002,86	K562	blood:

Variant related genes	Relation type
GMNN	TF binding region
ENSG00000112308	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs1002649	1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs10946726	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11968288	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12183400	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16889670	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16889688	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2295735	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2307306	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2307307	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28561768	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3756809	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756810	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756811	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756812	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3813682	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56208026	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58334728	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58898420	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59427770	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59587218	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59904886	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60794509	0.95[ASN][1000 genomes]
rs6456634	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456635	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6901466	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6912564	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6916816	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6917565	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6917813	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6934938	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6935339	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6939757	1.00[ASN][1000 genomes]
rs6940028	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73394570	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73394572	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73394575	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73394577	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73394578	1.00[ASN][1000 genomes]
rs73394591	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73396404	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396407	1.00[ASN][1000 genomes]
rs73396430	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396439	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396453	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7356832	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7357034	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73728683	0.86[ASN][1000 genomes]
rs7757501	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7771372	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7771462	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775042	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9295632	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9295634	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461060	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461061	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461062	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461063	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461064	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461065	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461068	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461069	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461071	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467284	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467285	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467286	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467288	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467289	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467290	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467291	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467292	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467293	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467294	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467295	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467296	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467297	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9467303	1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467304	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467305	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467309	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467311	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467312	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467316	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467317	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467318	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467319	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830609	chr6:24712086-24896647	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv428474	chr6:24714157-24797977	Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24760400-24775000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:24765400-24774400	Weak transcription	Fetal Intestine Small	intestine
3	chr6:24767000-24774600	Weak transcription	Stomach Mucosa	stomach
4	chr6:24768800-24774200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr6:24771000-24771800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:24771000-24772200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr6:24771400-24771800	Enhancers	K562	blood
8	chr6:24771400-24772200	Flanking Active TSS	HepG2	liver

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