Variant report

Variant	rs6044113
Chromosome Location	chr20:16536638-16536639
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1004895	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1071913	0.85[JPT][hapmap]
rs16997837	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1997902	0.89[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2092695	0.85[JPT][hapmap]
rs2092696	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2143986	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2143987	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4440028	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4814506	0.86[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4814507	0.84[JPT][hapmap]
rs4814508	0.85[JPT][hapmap]
rs6034522	0.85[JPT][hapmap]
rs6034523	0.84[JPT][hapmap]
rs6034524	0.85[JPT][hapmap]
rs6034531	1.00[CEU][hapmap];0.81[CHB][hapmap];0.90[JPT][hapmap];0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6034532	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6044080	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6044082	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6044087	0.85[JPT][hapmap]
rs6044088	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6044089	0.85[JPT][hapmap]
rs6044090	0.85[JPT][hapmap]
rs6044094	0.84[JPT][hapmap]
rs6044095	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6044096	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6044097	0.85[JPT][hapmap]
rs6044098	0.84[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes]
rs6044100	0.88[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6044102	0.84[JPT][hapmap]
rs6044104	0.88[AFR][1000 genomes]
rs6044110	0.85[JPT][hapmap]
rs6075070	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6111174	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6111177	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6135791	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6135794	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6135795	0.84[JPT][hapmap]
rs6514689	0.84[JPT][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6044113	C20orf23	Cis_1M	lymphoblastoid	RTeQTL
rs6044113	KIF16B	cis	Whole Blood	GTEx

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16508400-16536800	Weak transcription	Stomach Smooth Muscle	stomach
2	chr20:16509200-16553000	Weak transcription	Primary T cells from cord blood	blood
3	chr20:16511600-16549000	Weak transcription	Colonic Mucosa	Colon
4	chr20:16522800-16536800	Weak transcription	Aorta	Aorta
5	chr20:16533800-16537600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr20:16533800-16538400	Enhancers	NHEK	skin
7	chr20:16534200-16536800	Weak transcription	Small Intestine	intestine
8	chr20:16534200-16537600	Enhancers	Adipose Nuclei	Adipose
9	chr20:16534200-16537600	Enhancers	Esophagus	oesophagus
10	chr20:16534200-16538200	Weak transcription	Brain Anterior Caudate	brain
11	chr20:16534600-16538400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr20:16534600-16553600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr20:16534800-16537400	Weak transcription	Brain Substantia Nigra	brain
14	chr20:16535000-16537600	Enhancers	Psoas Muscle	Psoas
15	chr20:16535200-16537400	Enhancers	Fetal Muscle Leg	muscle
16	chr20:16535200-16538400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr20:16535400-16537000	Weak transcription	Spleen	Spleen
18	chr20:16535400-16537400	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr20:16535400-16538400	Enhancers	Right Atrium	heart
20	chr20:16535600-16537000	Weak transcription	Pancreas	Pancrea
21	chr20:16535600-16537400	Enhancers	Skeletal Muscle Male	skeletal muscle
22	chr20:16535800-16536800	Weak transcription	Gastric	stomach
23	chr20:16535800-16536800	Weak transcription	Left Ventricle	heart
24	chr20:16535800-16537000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr20:16535800-16537000	Enhancers	Duodenum Smooth Muscle	Duodenum
26	chr20:16535800-16537400	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr20:16535800-16537600	Enhancers	NHDF-Ad	bronchial
28	chr20:16535800-16537800	Enhancers	HMEC	breast
29	chr20:16535800-16538800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr20:16535800-16539000	Weak transcription	Fetal Intestine Small	intestine
31	chr20:16536000-16536800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr20:16536000-16537400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr20:16536000-16537600	Enhancers	A549	lung
34	chr20:16536000-16538200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr20:16536000-16551400	Weak transcription	Right Ventricle	heart
36	chr20:16536200-16536800	Weak transcription	Lung	lung
37	chr20:16536200-16537200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr20:16536200-16537600	Enhancers	Colon Smooth Muscle	Colon
39	chr20:16536400-16537600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr20:16536400-16538400	Weak transcription	Stomach Mucosa	stomach
41	chr20:16536600-16537200	Enhancers	Sigmoid Colon	Sigmoid Colon
42	chr20:16536600-16537400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr20:16536600-16537400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr20:16536600-16537400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr20:16536600-16537400	Enhancers	Ovary	ovary
46	chr20:16536600-16537600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr20:16536600-16537600	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links