Variant report

Variant	rs10764625
Chromosome Location	chr10:18898434-18898435
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:18897158..18899309-chr10:18901969..18904753,2	K562	blood:
2	chr10:18896603..18898658-chr10:18901969..18903863,2	K562	blood:

Extended variants
information (count: 142 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:136)

rs_ID	r²[population]
rs1055116	0.95[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs10734063	0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs10741091	0.82[JPT][hapmap]
rs10741111	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10741115	1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs10741129	0.81[ASN][1000 genomes]
rs10741132	0.81[ASN][1000 genomes]
rs10764582	0.89[CHB][hapmap];0.90[JPT][hapmap]
rs10764600	0.97[ASN][1000 genomes]
rs10764601	1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10764602	0.97[ASN][1000 genomes]
rs10764603	0.80[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10764604	0.97[ASN][1000 genomes]
rs10764605	0.96[ASN][1000 genomes]
rs10764640	0.88[ASN][1000 genomes]
rs10764691	0.81[ASN][1000 genomes]
rs10828851	0.84[CHB][hapmap];0.85[JPT][hapmap]
rs10828870	0.94[CHB][hapmap];0.90[JPT][hapmap]
rs10828871	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs10828896	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10828965	0.97[ASN][1000 genomes]
rs10828967	0.81[ASN][1000 genomes]
rs10828975	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs10828976	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs10828983	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10828984	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10828991	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10829009	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10829022	1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs10829037	1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs10829039	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs10829058	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs10829060	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs10829067	0.86[CEU][hapmap]
rs10829070	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs10829151	1.00[CHB][hapmap];0.80[JPT][hapmap];0.80[ASN][1000 genomes]
rs10829213	0.81[ASN][1000 genomes]
rs11014892	0.86[ASN][1000 genomes]
rs11014981	0.90[JPT][hapmap]
rs11015048	0.97[ASN][1000 genomes]
rs11015077	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11015105	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11015196	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs11015255	0.83[ASN][1000 genomes]
rs11015259	0.83[EUR][1000 genomes]
rs11015312	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs11015421	0.82[ASN][1000 genomes]
rs11511084	0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs11525266	0.95[ASN][1000 genomes]
rs11540309	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs11593617	0.91[ASN][1000 genomes]
rs11812341	0.93[ASN][1000 genomes]
rs11815228	0.94[CHB][hapmap];0.91[ASN][1000 genomes]
rs12219183	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs12359758	0.89[ASN][1000 genomes]
rs12762481	0.90[JPT][hapmap]
rs12765238	0.81[ASN][1000 genomes]
rs12766105	0.94[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs12766314	0.89[JPT][hapmap]
rs12767923	0.90[JPT][hapmap]
rs12769425	0.90[JPT][hapmap]
rs12770851	0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs12772009	0.84[ASN][1000 genomes]
rs12772522	0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs12775419	0.81[ASN][1000 genomes]
rs12778035	0.90[JPT][hapmap]
rs12779694	0.81[ASN][1000 genomes]
rs12781208	0.90[JPT][hapmap]
rs12784986	0.90[JPT][hapmap]
rs12785031	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs2228645	0.84[JPT][hapmap]
rs2272274	0.94[CHB][hapmap];0.90[JPT][hapmap]
rs34237250	0.84[ASN][1000 genomes]
rs3740102	0.94[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs3740104	0.90[JPT][hapmap]
rs3817494	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4237349	0.90[JPT][hapmap]
rs4310518	0.84[JPT][hapmap]
rs4445544	0.94[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs4468242	0.90[JPT][hapmap]
rs4747356	0.81[EUR][1000 genomes]
rs4748488	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs4748490	0.81[ASN][1000 genomes]
rs4748492	0.97[ASN][1000 genomes]
rs4748496	0.90[JPT][hapmap]
rs4748497	0.85[ASN][1000 genomes]
rs4748499	0.90[JPT][hapmap]
rs4748509	0.81[ASN][1000 genomes]
rs5022622	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56410858	0.93[ASN][1000 genomes]
rs57066269	0.88[ASN][1000 genomes]
rs57579336	0.97[ASN][1000 genomes]
rs62634837	0.82[ASN][1000 genomes]
rs62634838	0.84[ASN][1000 genomes]
rs62636218	0.97[ASN][1000 genomes]
rs6482515	0.84[JPT][hapmap]
rs6482533	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs6482597	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7071300	0.81[ASN][1000 genomes]
rs7072624	0.90[JPT][hapmap]
rs7072963	0.90[JPT][hapmap]
rs7074644	0.81[ASN][1000 genomes]
rs7075135	0.81[ASN][1000 genomes]
rs7077722	0.97[ASN][1000 genomes]
rs7079325	0.93[ASN][1000 genomes]
rs7081461	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7081972	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs7081977	0.89[ASN][1000 genomes]
rs7085318	0.91[ASN][1000 genomes]
rs7086757	0.81[ASN][1000 genomes]
rs7088091	0.84[CHB][hapmap];0.85[JPT][hapmap]
rs7093454	0.91[ASN][1000 genomes]
rs7096923	0.90[JPT][hapmap]
rs7099260	1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs7099423	0.90[JPT][hapmap]
rs7100880	1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs7101133	0.81[AMR][1000 genomes]
rs72787963	0.80[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7477076	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7894016	0.97[ASN][1000 genomes]
rs7895784	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs7898513	0.81[JPT][hapmap]
rs7898781	0.88[ASN][1000 genomes]
rs7899017	0.88[ASN][1000 genomes]
rs7904016	0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs7904263	0.80[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7904949	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs7905365	0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs7907891	0.91[ASN][1000 genomes]
rs7909570	0.81[ASN][1000 genomes]
rs7910902	0.85[EUR][1000 genomes]
rs7917584	0.81[JPT][hapmap]
rs7919487	0.90[ASN][1000 genomes]
rs7922550	0.86[JPT][hapmap]
rs7922829	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs7923480	0.94[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	esv34545	chr10:18821185-18908294	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	esv2757371	chr10:18835325-18906507	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv2759736	chr10:18835325-18906507	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv466760	chr10:18839350-18905935	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv550044	chr10:18839350-18905935	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10764625	NSUN6	Cis_1M	lymphoblastoid	RTeQTL
rs10764625	RP11-499P20.2	cis	Thyroid	GTEx
rs10764625	RP11-499P20.2	cis	Nerve Tibial	GTEx

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18846200-18899200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr10:18848400-18915800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr10:18849800-18910800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr10:18863000-18910800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr10:18863800-18902200	Weak transcription	Brain Anterior Caudate	brain
6	chr10:18866600-18899400	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr10:18867600-18899600	Weak transcription	Placenta	Placenta
8	chr10:18867800-18900400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr10:18867800-18916400	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr10:18868000-18902200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr10:18868000-18916200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr10:18868200-18904800	Weak transcription	HSMMtube	muscle
13	chr10:18869800-18910800	Weak transcription	Right Ventricle	heart
14	chr10:18870200-18900600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr10:18870600-18908400	Weak transcription	Brain Substantia Nigra	brain
16	chr10:18870600-18916000	Weak transcription	Rectal Smooth Muscle	rectum
17	chr10:18871600-18910000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr10:18872400-18899600	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr10:18872800-18916000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr10:18873200-18908200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr10:18873600-18916000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr10:18875000-18916000	Weak transcription	Brain Cingulate Gyrus	brain
23	chr10:18875600-18900600	Weak transcription	Esophagus	oesophagus
24	chr10:18875600-18912600	Weak transcription	Stomach Smooth Muscle	stomach
25	chr10:18877200-18899200	Weak transcription	Duodenum Mucosa	Duodenum
26	chr10:18877200-18899400	Weak transcription	K562	blood
27	chr10:18877200-18899600	Weak transcription	Primary B cells from peripheral blood	blood
28	chr10:18877200-18916200	Weak transcription	Thymus	Thymus
29	chr10:18877200-18916400	Weak transcription	Spleen	Spleen
30	chr10:18877400-18916200	Weak transcription	Pancreas	Pancrea
31	chr10:18877400-18916400	Weak transcription	Psoas Muscle	Psoas
32	chr10:18877600-18900000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr10:18877600-18916400	Weak transcription	Gastric	stomach
34	chr10:18878000-18915600	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr10:18881400-18916400	Weak transcription	Brain Angular Gyrus	brain
36	chr10:18882000-18916200	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr10:18882200-18899400	Strong transcription	Liver	Liver
38	chr10:18884200-18899800	Weak transcription	Fetal Lung	lung
39	chr10:18884200-18900200	Weak transcription	Fetal Brain Female	brain
40	chr10:18884200-18900400	Weak transcription	Ovary	ovary
41	chr10:18884200-18900600	Weak transcription	Brain Germinal Matrix	brain
42	chr10:18884200-18916400	Weak transcription	Aorta	Aorta
43	chr10:18884400-18900600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr10:18884600-18900200	Weak transcription	Fetal Thymus	thymus
45	chr10:18884600-18916400	Weak transcription	Brain Hippocampus Middle	brain
46	chr10:18884800-18909400	Weak transcription	Primary hematopoietic stem cells	blood
47	chr10:18885200-18901200	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr10:18885200-18904400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr10:18885400-18898600	Weak transcription	Primary B cells from cord blood	blood
50	chr10:18885400-18900200	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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