Variant report

Variant	rs11015196
Chromosome Location	chr10:18913344-18913345
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 124 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:121)

rs_ID	r²[population]
rs10400076	0.81[AMR][1000 genomes]
rs10430567	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs1055116	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10734063	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10741091	0.82[AMR][1000 genomes]
rs10741111	0.97[ASN][1000 genomes]
rs10741115	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10741129	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10741132	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10764582	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10764583	0.85[AMR][1000 genomes]
rs10764600	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10764601	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10764602	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10764603	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10764604	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10764605	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10764625	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs10764640	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10764691	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10828851	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10828870	0.89[AMR][1000 genomes]
rs10828871	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10828872	0.93[AMR][1000 genomes]
rs10828896	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10828911	0.97[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10828965	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10828967	0.81[AMR][1000 genomes]
rs10828975	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10828983	0.92[ASN][1000 genomes]
rs10828991	0.93[ASN][1000 genomes]
rs10829009	0.93[ASN][1000 genomes]
rs10829022	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10829037	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10829039	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829040	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10829058	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10829060	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10829070	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10829148	0.86[EUR][1000 genomes]
rs10829151	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10829213	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11014892	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11015048	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11015077	0.81[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs11015105	0.80[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs11015255	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11015312	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11015421	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11525266	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11540309	0.81[ASN][1000 genomes]
rs11593617	0.85[ASN][1000 genomes]
rs11812341	0.86[ASN][1000 genomes]
rs11815228	0.85[ASN][1000 genomes]
rs12219183	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12359758	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12569474	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12766105	0.84[ASN][1000 genomes]
rs12767923	0.83[ASN][1000 genomes]
rs12769425	0.84[ASN][1000 genomes]
rs12774519	0.82[ASN][1000 genomes]
rs12778035	0.84[ASN][1000 genomes]
rs12781208	0.84[ASN][1000 genomes]
rs12784986	0.84[ASN][1000 genomes]
rs12785031	0.88[ASN][1000 genomes]
rs2272274	0.89[AMR][1000 genomes]
rs34359432	0.81[ASN][1000 genomes]
rs3740102	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3817494	0.85[AMR][1000 genomes]
rs4237349	0.81[ASN][1000 genomes]
rs4445544	0.85[ASN][1000 genomes]
rs4573590	0.81[ASN][1000 genomes]
rs4747350	0.86[AMR][1000 genomes]
rs4748488	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4748492	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4748496	0.83[ASN][1000 genomes]
rs4748497	0.93[ASN][1000 genomes]
rs4748498	0.83[ASN][1000 genomes]
rs4748499	0.84[ASN][1000 genomes]
rs4748509	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs5022622	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs55927700	0.81[ASN][1000 genomes]
rs56410858	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs57066269	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57579336	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62634837	0.88[AMR][1000 genomes]
rs62634838	0.88[AMR][1000 genomes]
rs62636218	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6482533	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6482597	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7077722	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7079325	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7081461	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7081690	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7081977	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7085318	0.85[ASN][1000 genomes]
rs7087030	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7089083	0.84[ASN][1000 genomes]
rs7093454	0.85[ASN][1000 genomes]
rs7099260	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7099423	0.84[ASN][1000 genomes]
rs7100880	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72787951	0.85[AMR][1000 genomes]
rs72787963	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7477076	0.83[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs7894016	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7895784	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7898781	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7899017	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7901598	0.97[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7904263	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7904949	0.84[ASN][1000 genomes]
rs7907891	0.85[ASN][1000 genomes]
rs7909570	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7909845	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7910902	0.84[ASN][1000 genomes]
rs7917584	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7919487	0.84[ASN][1000 genomes]
rs7922550	0.84[AMR][1000 genomes]
rs7922829	0.84[AMR][1000 genomes]
rs7923480	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv982911	chr10:18911989-18931479	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	esv3380756	chr10:18912943-18923066	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs11015196	RP11-499P20.2	cis	Skin Sun Exposed Lower leg	GTEx
rs11015196	ARL5B	Cis_1M	lymphoblastoid	RTeQTL
rs11015196	RP11-499P20.2	cis	Thyroid	GTEx
rs11015196	ARL5B	cis	Whole Blood	GTEx
rs11015196	NSUN6	Cis_1M	lymphoblastoid	RTeQTL
rs11015196	RP11-499P20.2	cis	lung	GTEx
rs11015196	RP11-499P20.2	cis	Esophagus Mucosa	GTEx
rs11015196	RP11-499P20.2	cis	Nerve Tibial	GTEx
rs11015196	CACNB2	Cis_1M	lymphoblastoid	RTeQTL
rs11015196	NSUN6	cis	lung	GTEx
rs11015196	RP11-499P20.2	cis	Whole Blood	GTEx

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18848400-18915800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr10:18867800-18916400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr10:18868000-18916200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr10:18870600-18916000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr10:18872800-18916000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr10:18873600-18916000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr10:18875000-18916000	Weak transcription	Brain Cingulate Gyrus	brain
8	chr10:18877200-18916200	Weak transcription	Thymus	Thymus
9	chr10:18877200-18916400	Weak transcription	Spleen	Spleen
10	chr10:18877400-18916200	Weak transcription	Pancreas	Pancrea
11	chr10:18877400-18916400	Weak transcription	Psoas Muscle	Psoas
12	chr10:18877600-18916400	Weak transcription	Gastric	stomach
13	chr10:18878000-18915600	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr10:18881400-18916400	Weak transcription	Brain Angular Gyrus	brain
15	chr10:18882000-18916200	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr10:18884200-18916400	Weak transcription	Aorta	Aorta
17	chr10:18884600-18916400	Weak transcription	Brain Hippocampus Middle	brain
18	chr10:18885400-18916200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr10:18885400-18916400	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr10:18891600-18916400	Weak transcription	Lung	lung
21	chr10:18895600-18916400	Weak transcription	Left Ventricle	heart
22	chr10:18896600-18916400	Weak transcription	Colon Smooth Muscle	Colon
23	chr10:18896600-18916400	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr10:18896800-18916000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr10:18897200-18916400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr10:18898400-18916400	Weak transcription	Fetal Kidney	kidney
27	chr10:18898400-18916400	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr10:18900000-18915800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr10:18900000-18915800	Weak transcription	NHEK	skin
30	chr10:18900000-18916200	Weak transcription	NHLF	lung
31	chr10:18900000-18916600	Weak transcription	Stomach Mucosa	stomach
32	chr10:18900200-18915800	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr10:18900200-18916000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr10:18900400-18916200	Weak transcription	NH-A	brain
35	chr10:18900400-18916400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr10:18900600-18916400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr10:18900800-18915000	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr10:18900800-18916400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr10:18901200-18915600	Weak transcription	Fetal Lung	lung
40	chr10:18901200-18916400	Weak transcription	Esophagus	oesophagus
41	chr10:18901400-18915600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr10:18901400-18915800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr10:18901400-18916000	Weak transcription	Fetal Brain Female	brain
44	chr10:18901400-18916200	Weak transcription	Ovary	ovary
45	chr10:18901400-18916200	Weak transcription	HSMM	muscle
46	chr10:18901400-18916400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr10:18901600-18916200	Weak transcription	Brain Germinal Matrix	brain
48	chr10:18901600-18916400	Weak transcription	Fetal Muscle Leg	muscle
49	chr10:18902200-18916400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr10:18902400-18916200	Weak transcription	Fetal Stomach	stomach

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