Variant report

Variant	rs6485700
Chromosome Location	chr11:46875933-46875934
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:46866397..46870100-chr11:46875347..46881800,8	K562	blood:
2	chr11:46863476..46865303-chr11:46874435..46876525,2	K562	blood:

Variant related genes	Relation type
ENSG00000247675	Chromatin interaction
ENSG00000175216	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10466476	0.86[CEU][hapmap];0.86[YRI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10466477	0.88[CEU][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10838634	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11038985	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11038987	0.88[CEU][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11039012	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11039015	1.00[CEU][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11607429	1.00[ASN][1000 genomes]
rs11822959	0.93[ASW][hapmap];0.88[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11824327	1.00[CEU][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11825434	1.00[CEU][hapmap];0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12273360	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12277006	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[LWK][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12281784	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12287376	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12294921	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16938534	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17787930	1.00[CEU][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2867206	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3136433	0.88[CEU][hapmap];1.00[ASN][1000 genomes]
rs3136434	0.87[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[ASN][1000 genomes]
rs3136436	1.00[ASN][1000 genomes]
rs3136439	0.88[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[ASN][1000 genomes]
rs3136443	1.00[ASN][1000 genomes]
rs3136446	0.88[CEU][hapmap];1.00[ASN][1000 genomes]
rs3136448	1.00[ASN][1000 genomes]
rs3136467	1.00[ASN][1000 genomes]
rs3136468	1.00[ASN][1000 genomes]
rs3136469	1.00[ASN][1000 genomes]
rs3136472	1.00[ASN][1000 genomes]
rs3136478	0.96[YRI][hapmap]
rs3136480	1.00[ASN][1000 genomes]
rs3136481	1.00[ASN][1000 genomes]
rs3136482	1.00[ASN][1000 genomes]
rs3136485	0.93[YRI][hapmap]
rs3136489	1.00[ASN][1000 genomes]
rs3136500	0.88[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[ASN][1000 genomes]
rs3136504	1.00[ASN][1000 genomes]
rs3136521	1.00[ASN][1000 genomes]
rs4128315	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4500447	0.82[CEU][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56311746	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56331152	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57368576	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57485117	0.83[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5898	0.88[CEU][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[ASN][1000 genomes]
rs59197251	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60940896	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61382645	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61884270	1.00[ASN][1000 genomes]
rs61884294	1.00[ASN][1000 genomes]
rs61884297	1.00[ASN][1000 genomes]
rs61884303	1.00[ASN][1000 genomes]
rs61884304	1.00[ASN][1000 genomes]
rs61884305	1.00[ASN][1000 genomes]
rs61884306	1.00[ASN][1000 genomes]
rs61884307	1.00[ASN][1000 genomes]
rs61896127	1.00[ASN][1000 genomes]
rs61897302	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61897303	0.84[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61897304	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61897308	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61898529	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61898531	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61899280	1.00[ASN][1000 genomes]
rs61899282	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61899283	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61899292	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6485706	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7102325	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7102474	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7105052	0.88[CEU][hapmap];0.96[YRI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7105172	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7105217	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7106323	0.88[CEU][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7107703	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs7108147	0.87[ASW][hapmap];0.88[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7111760	0.86[ASW][hapmap];0.88[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7111811	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7112060	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7112518	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7115038	1.00[CEU][hapmap]
rs7115986	0.88[CEU][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7118097	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7120113	0.89[CEU][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7123729	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7128102	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7129622	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73456126	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7928445	0.87[ASW][hapmap];0.88[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.80[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7938960	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7945548	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7947517	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9667108	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9735937	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6485700	NR1H3	cis	multi-tissue	Pritchard

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46868000-46909000	Weak transcription	Small Intestine	intestine
2	chr11:46868200-46879600	Weak transcription	Left Ventricle	heart
3	chr11:46868200-46880000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr11:46868400-46876000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr11:46868400-46876600	Weak transcription	Fetal Muscle Leg	muscle
6	chr11:46868400-46877200	Weak transcription	Brain Anterior Caudate	brain
7	chr11:46868400-46877400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr11:46868400-46878600	Weak transcription	HSMMtube	muscle
9	chr11:46868400-46878800	Weak transcription	Right Ventricle	heart
10	chr11:46868400-46879200	Weak transcription	Fetal Kidney	kidney
11	chr11:46868400-46879400	Weak transcription	Brain Substantia Nigra	brain
12	chr11:46868400-46879600	Weak transcription	Fetal Intestine Large	intestine
13	chr11:46868400-46879800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr11:46868400-46880200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr11:46868400-46880400	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr11:46868400-46884200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr11:46868600-46876600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr11:46868600-46877000	Weak transcription	Duodenum Mucosa	Duodenum
19	chr11:46868600-46877200	Weak transcription	Brain Hippocampus Middle	brain
20	chr11:46868600-46877400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr11:46868600-46877600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr11:46868600-46877800	Weak transcription	Fetal Stomach	stomach
23	chr11:46868600-46878400	Weak transcription	Fetal Lung	lung
24	chr11:46868600-46879200	Weak transcription	Brain Cingulate Gyrus	brain
25	chr11:46868600-46879200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr11:46868600-46879400	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr11:46868600-46879600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr11:46868600-46879800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr11:46868600-46879800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr11:46868600-46879800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr11:46868600-46879800	Weak transcription	Stomach Smooth Muscle	stomach
32	chr11:46868600-46880000	Weak transcription	Brain Angular Gyrus	brain
33	chr11:46868600-46880000	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr11:46868600-46880000	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr11:46868600-46885400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr11:46868600-46894400	Weak transcription	HMEC	breast
37	chr11:46868600-46895200	Weak transcription	Fetal Heart	heart
38	chr11:46868600-46917400	Weak transcription	Fetal Brain Male	brain
39	chr11:46868800-46878000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr11:46868800-46879600	Weak transcription	Fetal Brain Female	brain
41	chr11:46868800-46879800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr11:46868800-46884200	Weak transcription	NHEK	skin
43	chr11:46868800-46913000	Weak transcription	A549	lung
44	chr11:46869000-46879800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr11:46869000-46879800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr11:46869000-46880200	Weak transcription	Brain Germinal Matrix	brain
47	chr11:46869000-46886800	Weak transcription	NHDF-Ad	bronchial
48	chr11:46872600-46880400	Weak transcription	Esophagus	oesophagus
49	chr11:46873000-46877800	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr11:46873200-46877800	Weak transcription	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links