Variant report

Variant	rs10886054
Chromosome Location	chr10:119052773-119052774
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 102 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs1008448	0.96[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10377	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10787770	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10886063	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs11197968	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs11197969	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs11197981	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs11498892	0.85[ASN][1000 genomes]
rs12247698	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12413507	0.87[CHB][hapmap];0.81[ASN][1000 genomes]
rs12573009	0.87[CHB][hapmap];0.81[ASN][1000 genomes]
rs14240	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs181440	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1935167	0.87[CHB][hapmap]
rs1935168	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1954212	0.87[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs1954213	0.81[ASN][1000 genomes]
rs2052075	0.87[ASN][1000 genomes]
rs2096112	0.98[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2244249	0.87[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs2244375	0.85[ASN][1000 genomes]
rs2255062	0.81[ASN][1000 genomes]
rs2255367	0.87[CHB][hapmap];0.81[ASN][1000 genomes]
rs2275671	0.82[ASN][1000 genomes]
rs2429505	0.87[CHB][hapmap];0.81[ASN][1000 genomes]
rs2429508	0.83[ASN][1000 genomes]
rs2487692	0.87[ASN][1000 genomes]
rs2490626	0.87[ASN][1000 genomes]
rs2490628	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490631	0.87[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs2532781	0.87[ASN][1000 genomes]
rs2532782	0.87[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs2532783	0.87[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs2532784	0.87[CHB][hapmap];0.87[ASN][1000 genomes]
rs2532785	0.87[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs2532786	0.83[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs2532787	0.87[ASN][1000 genomes]
rs2532788	0.87[ASN][1000 genomes]
rs2532789	0.81[ASN][1000 genomes]
rs2532792	0.81[ASN][1000 genomes]
rs2532793	0.81[ASN][1000 genomes]
rs2532795	0.87[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs2532796	0.85[CHB][hapmap];0.81[ASN][1000 genomes]
rs2532813	0.87[ASN][1000 genomes]
rs2532815	0.87[ASN][1000 genomes]
rs2532817	0.87[CHB][hapmap];0.87[ASN][1000 genomes]
rs2532834	0.87[ASN][1000 genomes]
rs2532835	0.87[ASN][1000 genomes]
rs2532836	0.87[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs2532838	0.86[CHB][hapmap];0.87[ASN][1000 genomes]
rs2532839	0.87[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs2532840	0.87[CHB][hapmap]
rs2532841	0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2532842	0.87[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs2532844	0.86[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs2794414	0.86[ASN][1000 genomes]
rs2794416	0.81[ASN][1000 genomes]
rs2794418	0.98[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2794419	0.87[ASN][1000 genomes]
rs2794421	0.87[ASN][1000 genomes]
rs2794435	0.87[ASN][1000 genomes]
rs2794436	0.87[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs2803799	0.87[CHB][hapmap];0.87[ASN][1000 genomes]
rs2803801	0.86[CHB][hapmap];0.87[ASN][1000 genomes]
rs2803802	0.87[ASN][1000 genomes]
rs2803803	0.86[ASN][1000 genomes]
rs2803804	0.86[CHB][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs2803807	0.87[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs2803809	0.85[ASN][1000 genomes]
rs2803810	0.87[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs2803816	0.91[CHB][hapmap];0.87[ASN][1000 genomes]
rs3523	0.85[ASN][1000 genomes]
rs363223	1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs363224	0.80[AMR][1000 genomes]
rs363225	0.84[CEU][hapmap]
rs363230	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs363235	0.87[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs363236	0.87[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs363237	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs363240	0.86[ASN][1000 genomes]
rs363242	0.87[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs363243	0.87[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs363275	0.87[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs363276	0.87[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs363278	0.87[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs363282	0.87[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs3814230	0.87[CHB][hapmap]
rs4751623	0.85[CHB][hapmap]
rs6585431	0.87[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs7070594	0.83[CHB][hapmap]
rs7072027	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs7086651	0.87[CHB][hapmap];0.80[JPT][hapmap]
rs7087395	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs7095278	0.84[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7099216	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7100827	0.80[AMR][1000 genomes]
rs72825530	0.81[ASN][1000 genomes]
rs7897828	0.87[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs7898092	0.87[CHB][hapmap];0.87[ASN][1000 genomes]
rs7900191	0.82[ASN][1000 genomes]
rs7902237	0.95[CHB][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.82[ASN][1000 genomes]
rs979992	0.87[CHB][hapmap];0.82[JPT][hapmap]

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs10886054	SLC18A2	cis	Muscle Skeletal	GTEx
rs10886054	SLC18A2	Cis_1M	lymphoblastoid	RTeQTL
rs10886054	PDZD8	cis	Artery Aorta	GTEx
rs10886054	SLC18A2	cis	Artery Tibial	GTEx
rs10886054	PDZD8	cis	Artery Tibial	GTEx
rs10886054	PDZD8	Cis_1M	lymphoblastoid	RTeQTL
rs10886054	PDZD8	cis	Esophagus Muscularis	GTEx
rs10886054	PDZD8	cis	normal skin	skin_eQTL

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:119032600-119063200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:119035400-119058000	Weak transcription	Small Intestine	intestine
3	chr10:119041400-119101200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr10:119041800-119071600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:119042000-119053200	Weak transcription	Colonic Mucosa	Colon
6	chr10:119042200-119064200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr10:119043000-119069400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr10:119043000-119094400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr10:119043400-119056800	Weak transcription	Brain Substantia Nigra	brain
10	chr10:119043400-119065600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr10:119044600-119060000	Weak transcription	Brain Cingulate Gyrus	brain
12	chr10:119044800-119077200	Weak transcription	NHDF-Ad	bronchial
13	chr10:119045000-119053200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr10:119045000-119057000	Weak transcription	Fetal Lung	lung
15	chr10:119045000-119058200	Weak transcription	Fetal Intestine Small	intestine
16	chr10:119045000-119063200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr10:119045000-119063200	Weak transcription	Fetal Stomach	stomach
18	chr10:119045000-119070800	Weak transcription	Gastric	stomach
19	chr10:119045000-119081800	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr10:119045400-119053200	Weak transcription	Brain Anterior Caudate	brain
21	chr10:119045400-119055600	Weak transcription	Brain Hippocampus Middle	brain
22	chr10:119045400-119071200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr10:119045600-119061200	Weak transcription	Fetal Kidney	kidney
24	chr10:119045600-119078600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr10:119046400-119059600	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr10:119046600-119064200	Weak transcription	HMEC	breast
27	chr10:119049000-119056000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr10:119049200-119058400	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr10:119049200-119070800	Weak transcription	NH-A	brain
30	chr10:119049400-119055800	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr10:119049400-119058200	Weak transcription	Primary B cells from cord blood	blood
32	chr10:119049400-119058400	Weak transcription	Pancreas	Pancrea
33	chr10:119049400-119063000	Weak transcription	Thymus	Thymus
34	chr10:119049400-119063400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr10:119049400-119070000	Weak transcription	HSMM	muscle
36	chr10:119049400-119071200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr10:119049400-119071400	Weak transcription	Aorta	Aorta
38	chr10:119049400-119071400	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr10:119049400-119074000	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr10:119049600-119056600	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr10:119049600-119059600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr10:119049600-119075800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr10:119049800-119053000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr10:119049800-119054600	Weak transcription	Lung	lung
45	chr10:119049800-119059200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr10:119049800-119061200	Weak transcription	K562	blood
47	chr10:119049800-119063000	Weak transcription	Fetal Thymus	thymus
48	chr10:119049800-119063600	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr10:119049800-119068800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr10:119049800-119069600	Weak transcription	HUVEC	blood vessel

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