Variant report

Variant	rs6034523
Chromosome Location	chr20:16521447-16521448
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1004895	0.84[JPT][hapmap]
rs1071913	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16997837	0.84[JPT][hapmap]
rs1997902	0.84[JPT][hapmap]
rs2092695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2143986	0.84[JPT][hapmap]
rs2223906	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4814507	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4814508	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6034522	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6034524	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6044077	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6044080	0.84[JPT][hapmap]
rs6044084	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6044087	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6044088	0.84[JPT][hapmap]
rs6044089	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6044090	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6044092	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6044094	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.96[MEX][hapmap];0.86[MKK][hapmap];0.96[TSI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6044095	0.84[JPT][hapmap]
rs6044097	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6044098	0.92[CEU][hapmap];0.91[CHB][hapmap];0.81[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6044100	0.84[JPT][hapmap]
rs6044102	0.88[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.98[TSI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6044103	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6044104	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6044106	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6044110	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6044113	0.84[JPT][hapmap]
rs6075070	0.84[JPT][hapmap]
rs6111174	0.84[JPT][hapmap]
rs6111177	0.84[JPT][hapmap]
rs6135794	0.84[JPT][hapmap]
rs6135795	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6514689	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6034523	KIF16B	cis	cerebellum	SCAN
rs6034523	KIF16B	cis	Thyroid	GTEx

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16492600-16528800	Weak transcription	Primary B cells from cord blood	blood
2	chr20:16497600-16521600	Weak transcription	Brain Hippocampus Middle	brain
3	chr20:16507400-16527000	Weak transcription	Primary B cells from peripheral blood	blood
4	chr20:16508000-16522000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr20:16508400-16536800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr20:16509000-16522000	Weak transcription	Aorta	Aorta
7	chr20:16509200-16553000	Weak transcription	Primary T cells from cord blood	blood
8	chr20:16509600-16521600	Weak transcription	Fetal Muscle Leg	muscle
9	chr20:16511600-16522400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr20:16511600-16549000	Weak transcription	Colonic Mucosa	Colon
11	chr20:16514400-16522000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr20:16517800-16534200	Weak transcription	Esophagus	oesophagus
13	chr20:16518200-16521600	Weak transcription	Left Ventricle	heart
14	chr20:16518200-16523200	Weak transcription	Small Intestine	intestine
15	chr20:16518200-16535800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr20:16518400-16521600	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr20:16518800-16534000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr20:16519000-16522000	Weak transcription	Lung	lung
19	chr20:16520200-16522000	Weak transcription	Osteobl	bone
20	chr20:16520200-16532000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr20:16520200-16534400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr20:16520400-16523200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr20:16520400-16533800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr20:16520400-16534800	Weak transcription	Fetal Intestine Small	intestine
25	chr20:16520800-16523200	Weak transcription	Primary hematopoietic stem cells	blood
26	chr20:16520800-16523400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr20:16520800-16523800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr20:16521000-16522800	Enhancers	Spleen	Spleen
29	chr20:16521000-16523800	Enhancers	Ovary	ovary
30	chr20:16521200-16522800	Enhancers	Adipose Nuclei	Adipose
31	chr20:16521200-16522800	Enhancers	Liver	Liver
32	chr20:16521200-16522800	Enhancers	Right Atrium	heart
33	chr20:16521200-16522800	Enhancers	Right Ventricle	heart
34	chr20:16521200-16522800	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr20:16521200-16523400	Enhancers	Psoas Muscle	Psoas
36	chr20:16521400-16521800	Weak transcription	Brain Substantia Nigra	brain
37	chr20:16521400-16521800	Weak transcription	Pancreas	Pancrea
38	chr20:16521400-16523400	Enhancers	Skeletal Muscle Male	skeletal muscle

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