Variant report

Variant	rs10000746
Chromosome Location	chr4:54281731-54281732
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:54275902..54277874-chr4:54281343..54283790,2	MCF-7	breast:
2	chr4:54280667..54284100-chr4:54286381..54289791,4	K562	blood:

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10001201	0.85[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes]
rs10007903	0.85[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap];0.81[EUR][1000 genomes]
rs10011259	1.00[CEU][hapmap];0.89[CHB][hapmap];0.80[JPT][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10017903	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10021541	0.87[EUR][1000 genomes]
rs10028142	0.82[EUR][1000 genomes]
rs1021099	0.87[EUR][1000 genomes]
rs11133266	0.94[CEU][hapmap];0.89[CHB][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11722866	0.83[EUR][1000 genomes]
rs11723755	0.83[EUR][1000 genomes]
rs11725230	0.84[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes]
rs11731499	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11734039	0.84[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes]
rs11734681	0.81[CEU][hapmap];0.83[CHB][hapmap]
rs11947256	0.87[EUR][1000 genomes]
rs12507563	0.80[CEU][hapmap]
rs12507739	0.88[CHB][hapmap]
rs12508701	0.83[CHB][hapmap]
rs12511088	0.81[CEU][hapmap]
rs12649718	0.88[EUR][1000 genomes]
rs12651390	0.85[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap]
rs1471597	0.87[EUR][1000 genomes]
rs1481819	1.00[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1481824	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1531748	1.00[CEU][hapmap];0.89[CHB][hapmap];0.80[JPT][hapmap];0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1600795	0.94[CEU][hapmap];0.88[CHB][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17082782	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17082893	0.83[CHB][hapmap]
rs17520800	0.82[EUR][1000 genomes]
rs2090117	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2271554	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2412447	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs2412488	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28414913	0.82[EUR][1000 genomes]
rs28579268	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35499169	0.86[EUR][1000 genomes]
rs3765158	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3811782	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3811785	0.84[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.81[EUR][1000 genomes]
rs4864759	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4864760	0.84[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes]
rs56998298	0.87[EUR][1000 genomes]
rs6554100	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6554104	0.84[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.87[EUR][1000 genomes]
rs6554105	0.84[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes]
rs6554106	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6818788	0.81[CEU][hapmap]
rs6822201	0.81[CEU][hapmap]
rs6825364	0.81[EUR][1000 genomes]
rs6827269	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6828559	0.88[CHB][hapmap];0.82[EUR][1000 genomes]
rs6833766	0.85[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.83[EUR][1000 genomes]
rs6834934	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6838260	0.83[CHB][hapmap]
rs6839922	0.81[CEU][hapmap]
rs6840530	0.81[CEU][hapmap]
rs6848887	0.88[EUR][1000 genomes]
rs6852884	0.94[CEU][hapmap];0.83[CHB][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6857024	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6857869	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6858320	0.81[AFR][1000 genomes]
rs7655975	0.87[EUR][1000 genomes]
rs7682199	0.88[CHB][hapmap];0.84[JPT][hapmap]
rs7686876	1.00[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes]
rs7689981	0.82[EUR][1000 genomes]
rs7690908	0.82[EUR][1000 genomes]
rs7691578	0.82[EUR][1000 genomes]
rs7697622	0.88[EUR][1000 genomes]
rs7698792	0.85[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes]
rs931181	0.84[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.88[EUR][1000 genomes]
rs931182	1.00[CEU][hapmap];0.89[CHB][hapmap];0.80[JPT][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9312639	0.88[CHB][hapmap];0.81[EUR][1000 genomes]
rs980987	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9995284	0.80[EUR][1000 genomes]
rs9996883	0.83[CHB][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10000746	ZNF585A	cis	Frontal Cortex	GTEx

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54244600-54310600	Weak transcription	Spleen	Spleen
2	chr4:54244600-54319200	Weak transcription	Pancreas	Pancrea
3	chr4:54246200-54319200	Weak transcription	Aorta	Aorta
4	chr4:54246600-54311200	Weak transcription	Small Intestine	intestine
5	chr4:54253400-54327200	Weak transcription	Colonic Mucosa	Colon
6	chr4:54253600-54293400	Weak transcription	HSMMtube	muscle
7	chr4:54256400-54294200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr4:54256600-54306200	Weak transcription	Stomach Mucosa	stomach
9	chr4:54256600-54319200	Weak transcription	Gastric	stomach
10	chr4:54257600-54296000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr4:54263800-54295000	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr4:54264400-54294800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr4:54266400-54293600	Weak transcription	NHEK	skin
14	chr4:54267200-54294600	Weak transcription	Hela-S3	cervix
15	chr4:54267800-54302400	Weak transcription	Psoas Muscle	Psoas
16	chr4:54268000-54295000	Weak transcription	Fetal Brain Male	brain
17	chr4:54268000-54310400	Weak transcription	Rectal Smooth Muscle	rectum
18	chr4:54268000-54327600	Weak transcription	Colon Smooth Muscle	Colon
19	chr4:54268400-54319800	Weak transcription	A549	lung
20	chr4:54268600-54287400	Weak transcription	Brain Anterior Caudate	brain
21	chr4:54268800-54292400	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr4:54269200-54293400	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr4:54269400-54294800	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr4:54269400-54303000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr4:54269600-54295000	Weak transcription	HMEC	breast
26	chr4:54270000-54284400	Weak transcription	Primary B cells from peripheral blood	blood
27	chr4:54270000-54287200	Weak transcription	Brain Cingulate Gyrus	brain
28	chr4:54270000-54292400	Weak transcription	Placenta	Placenta
29	chr4:54270000-54293400	Weak transcription	NH-A	brain
30	chr4:54270000-54294000	Weak transcription	Fetal Muscle Trunk	muscle
31	chr4:54270000-54330800	Weak transcription	Brain Substantia Nigra	brain
32	chr4:54270200-54282400	Weak transcription	Primary B cells from cord blood	blood
33	chr4:54270200-54285400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr4:54270200-54285600	Weak transcription	Left Ventricle	heart
35	chr4:54270200-54293400	Weak transcription	Primary neutrophils fromperipheralblood	blood
36	chr4:54270200-54293400	Weak transcription	NHLF	lung
37	chr4:54270200-54295200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr4:54270200-54295400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr4:54270200-54316600	Weak transcription	Esophagus	oesophagus
40	chr4:54275600-54283000	Strong transcription	Dnd41	blood
41	chr4:54276000-54285600	Weak transcription	Fetal Intestine Small	intestine
42	chr4:54276400-54293400	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr4:54276400-54319000	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr4:54276600-54282800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr4:54276600-54284000	Weak transcription	Primary T cells from cord blood	blood
46	chr4:54276600-54284000	Weak transcription	Fetal Stomach	stomach
47	chr4:54276600-54284200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr4:54276600-54284200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr4:54276600-54285600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr4:54276600-54287400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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