Variant report

Variant	rs11760
Chromosome Location	chr6:146205973-146205974
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:4)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:146204410..146206507-chr6:146211730..146213654,2	MCF-7	breast:
2	chr6:146054912..146058368-chr6:146203943..146209352,13	MCF-7	breast:
3	chr6:146187673..146189565-chr6:146204450..146206308,2	K562	blood:
4	chr6:146198677..146204458-chr6:146205817..146210739,7	K562	blood:

(count:4 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GRM1-1	chr6:146204341-146207721	NONHSAT115401
2	lnc-GRM1-1	chr6:146204341-146207721	NONHSAT115402
3	lnc-GRM1-1	chr6:146204341-146207721	ENSG00000235652.3
4	lnc-GRM1-1	chr6:146204341-146207721	NONHSAT115397

No data

Variant related genes	Relation type
ENSG00000270828	Chromatin interaction
ENSG00000270638	Chromatin interaction
ENSG00000112425	Chromatin interaction

Extended variants
information (count: 177 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:175)

rs_ID	r²[population]
rs1011596	0.80[ASN][1000 genomes]
rs10223508	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10447449	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10457792	0.80[AMR][1000 genomes]
rs10457793	0.82[AMR][1000 genomes]
rs10457794	0.82[AMR][1000 genomes]
rs10457795	0.80[AMR][1000 genomes]
rs1062067	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1062068	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10872580	0.81[EUR][1000 genomes]
rs11155442	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11155452	0.80[AMR][1000 genomes]
rs1133832	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11755334	0.82[AMR][1000 genomes]
rs12190966	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12194437	0.82[AMR][1000 genomes]
rs12199362	0.81[EUR][1000 genomes]
rs1331636	0.83[EUR][1000 genomes]
rs1331637	0.83[EUR][1000 genomes]
rs13437042	0.80[ASN][1000 genomes]
rs1412081	0.80[AMR][1000 genomes]
rs1832362	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1883365	0.80[ASN][1000 genomes]
rs1986729	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2073287	0.80[EUR][1000 genomes]
rs2144477	0.80[AMR][1000 genomes]
rs2207785	0.83[EUR][1000 genomes]
rs2224120	0.83[EUR][1000 genomes]
rs2224121	0.83[EUR][1000 genomes]
rs2243665	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2246334	0.83[EUR][1000 genomes]
rs2247206	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2247211	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2247317	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2247429	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2247666	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2249147	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2249386	0.91[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2250387	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2253194	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2253307	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2253648	0.95[ASN][1000 genomes]
rs2253654	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2253764	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2253768	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2253880	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2253886	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2253887	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2254257	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2254283	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2254288	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2256998	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2265467	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2265468	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2265469	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2265471	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2265472	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2265474	0.84[EUR][1000 genomes]
rs2265477	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2265915	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2265916	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2265917	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2265918	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2265919	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2328709	0.81[EUR][1000 genomes]
rs2328712	0.83[EUR][1000 genomes]
rs2474356	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2485632	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2492855	0.83[EUR][1000 genomes]
rs2748482	0.83[EUR][1000 genomes]
rs2748483	0.83[EUR][1000 genomes]
rs2748484	0.83[EUR][1000 genomes]
rs2748485	0.83[EUR][1000 genomes]
rs2748499	0.84[EUR][1000 genomes]
rs2748502	0.84[EUR][1000 genomes]
rs2777476	0.83[EUR][1000 genomes]
rs2777477	0.84[EUR][1000 genomes]
rs2777484	0.83[EUR][1000 genomes]
rs2814866	0.83[EUR][1000 genomes]
rs2814867	0.82[EUR][1000 genomes]
rs2814869	0.84[EUR][1000 genomes]
rs2814874	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2814875	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2814876	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2814877	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2814879	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2814880	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3811102	0.81[EUR][1000 genomes]
rs3923579	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3924498	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3924499	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3924502	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4075694	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4075695	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4075696	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4243478	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4280983	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4314514	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4316025	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4360151	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4391282	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4435956	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4566902	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4896852	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56181683	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62435810	0.83[EUR][1000 genomes]
rs6570723	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6570724	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6570736	0.83[AMR][1000 genomes]
rs6902913	0.81[ASN][1000 genomes]
rs6910790	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6914813	0.80[AMR][1000 genomes]
rs6917135	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6917482	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6921073	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6922507	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6923545	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6924159	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6926076	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6926657	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6931553	0.80[EUR][1000 genomes]
rs6933161	0.80[ASN][1000 genomes]
rs6937661	0.81[EUR][1000 genomes]
rs6938972	0.80[AMR][1000 genomes]
rs7739735	0.81[ASN][1000 genomes]
rs7740785	0.91[ASN][1000 genomes]
rs7742333	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7744014	0.81[ASN][1000 genomes]
rs7745696	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7747576	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7753092	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7753696	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7755440	0.81[AMR][1000 genomes]
rs7762562	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs854145	0.80[EUR][1000 genomes]
rs864390	0.84[EUR][1000 genomes]
rs9322043	0.80[EUR][1000 genomes]
rs9322047	0.81[AMR][1000 genomes]
rs9373473	0.80[ASN][1000 genomes]
rs9373475	0.81[EUR][1000 genomes]
rs9373476	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9373485	0.81[AMR][1000 genomes]
rs9376968	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9376970	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9376971	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9376975	0.80[EUR][1000 genomes]
rs9386131	0.81[ASN][1000 genomes]
rs9386132	0.81[EUR][1000 genomes]
rs9386133	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9386134	0.82[EUR][1000 genomes]
rs9386141	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9390354	0.81[ASN][1000 genomes]
rs9390356	0.81[EUR][1000 genomes]
rs9390358	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9390365	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9390377	0.81[AMR][1000 genomes]
rs9399565	0.80[ASN][1000 genomes]
rs9399567	0.84[EUR][1000 genomes]
rs9399569	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9399571	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9403747	0.80[ASN][1000 genomes]
rs9403749	0.84[EUR][1000 genomes]
rs9403750	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9403755	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9403756	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9403757	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9485024	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9497419	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9497424	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9497425	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9497427	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9497431	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9497434	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9497435	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9791313	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv830835	chr6:146145148-146287473	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	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
rs11760	RP11-545I5.3	cis	Esophagus Muscularis	GTEx

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146185200-146212200	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr6:146186400-146213200	Weak transcription	Brain Anterior Caudate	brain
3	chr6:146188000-146218800	Weak transcription	Right Ventricle	heart
4	chr6:146188800-146209000	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr6:146189400-146214400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr6:146189600-146211800	Weak transcription	Primary B cells from peripheral blood	blood
7	chr6:146193400-146207600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr6:146194000-146211800	Weak transcription	Primary hematopoietic stem cells	blood
9	chr6:146194800-146212400	Weak transcription	HUVEC	blood vessel
10	chr6:146195000-146209400	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr6:146196200-146210000	Weak transcription	Fetal Brain Male	brain
12	chr6:146196600-146212200	Weak transcription	Aorta	Aorta
13	chr6:146196600-146219600	Weak transcription	HMEC	breast
14	chr6:146196800-146209000	Weak transcription	Duodenum Mucosa	Duodenum
15	chr6:146197200-146209000	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr6:146197800-146219600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:146198000-146209400	Weak transcription	Brain Substantia Nigra	brain
18	chr6:146198000-146209600	Weak transcription	Fetal Brain Female	brain
19	chr6:146198200-146212400	Weak transcription	Fetal Kidney	kidney
20	chr6:146198200-146218600	Weak transcription	Fetal Heart	heart
21	chr6:146198200-146225600	Weak transcription	HSMMtube	muscle
22	chr6:146198800-146207200	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr6:146199200-146208800	Weak transcription	Fetal Thymus	thymus
24	chr6:146199600-146209400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr6:146199800-146209200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr6:146199800-146209600	Weak transcription	Brain Hippocampus Middle	brain
27	chr6:146199800-146214400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr6:146200000-146209600	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr6:146200000-146214200	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr6:146200200-146209000	Weak transcription	Placenta	Placenta
31	chr6:146200400-146207400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr6:146200400-146209000	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr6:146200400-146228600	Weak transcription	Pancreas	Pancrea
34	chr6:146200600-146207800	Weak transcription	Osteobl	bone
35	chr6:146200600-146209600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr6:146200600-146211000	Weak transcription	Brain Angular Gyrus	brain
37	chr6:146200600-146212200	Weak transcription	NHDF-Ad	bronchial
38	chr6:146200800-146208800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr6:146200800-146209600	Weak transcription	Brain Germinal Matrix	brain
40	chr6:146200800-146209800	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr6:146200800-146213400	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr6:146201000-146207800	Weak transcription	Fetal Intestine Large	intestine
43	chr6:146201000-146209600	Weak transcription	Esophagus	oesophagus
44	chr6:146201000-146209600	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr6:146201000-146209800	Weak transcription	NH-A	brain
46	chr6:146201000-146210200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr6:146201200-146206600	Weak transcription	Fetal Lung	lung
48	chr6:146201200-146208800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr6:146201200-146211200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr6:146201200-146217400	Strong transcription	HUES64 Cell Line	embryonic stem cell

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