Variant report

Variant	rs236853
Chromosome Location	chr6:79339466-79339467
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1012026	0.96[ASN][1000 genomes]
rs1012027	0.99[ASN][1000 genomes]
rs10455349	1.00[ASN][1000 genomes]
rs10806133	0.95[ASN][1000 genomes]
rs10943547	0.97[ASN][1000 genomes]
rs10943548	0.98[ASN][1000 genomes]
rs10943549	0.96[ASN][1000 genomes]
rs12197137	1.00[ASN][1000 genomes]
rs12201840	0.98[ASN][1000 genomes]
rs12209692	0.99[ASN][1000 genomes]
rs12210711	1.00[ASN][1000 genomes]
rs12213548	0.96[ASN][1000 genomes]
rs12530353	1.00[ASN][1000 genomes]
rs12530368	0.94[ASN][1000 genomes]
rs1395446	0.99[ASN][1000 genomes]
rs1395447	0.97[ASN][1000 genomes]
rs1407102	0.96[ASN][1000 genomes]
rs1567095	1.00[ASN][1000 genomes]
rs1567096	0.95[ASN][1000 genomes]
rs1567097	0.95[ASN][1000 genomes]
rs1570075	0.95[ASN][1000 genomes]
rs16890224	0.99[ASN][1000 genomes]
rs16890230	0.99[ASN][1000 genomes]
rs1995650	0.97[ASN][1000 genomes]
rs2063045	1.00[ASN][1000 genomes]
rs2202588	0.87[ASN][1000 genomes]
rs2321764	0.99[ASN][1000 genomes]
rs236852	0.89[ASN][1000 genomes]
rs236855	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs236859	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs236882	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs236884	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs236886	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs236888	0.83[EUR][1000 genomes]
rs500391	0.85[EUR][1000 genomes]
rs5018093	0.99[ASN][1000 genomes]
rs699182	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs717364	0.97[ASN][1000 genomes]
rs7755578	0.98[ASN][1000 genomes]
rs7763429	0.91[ASN][1000 genomes]
rs9361413	0.91[ASN][1000 genomes]
rs9361414	0.91[ASN][1000 genomes]
rs984157	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886235	chr6:78861808-79369972	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv604011	chr6:79042990-79455282	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv886300	chr6:79129963-79341891	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1028767	chr6:79200713-79341224	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79338600-79339600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:79338600-79339600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:79338600-79339600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr6:79338600-79339600	Active TSS	Brain Cingulate Gyrus	brain
5	chr6:79338600-79339600	Active TSS	Brain Hippocampus Middle	brain
6	chr6:79338600-79339600	Active TSS	NHDF-Ad	bronchial
7	chr6:79338600-79339600	Active TSS	Osteobl	bone
8	chr6:79338600-79339800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:79338800-79339600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
10	chr6:79338800-79339600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr6:79338800-79339600	Bivalent/Poised TSS	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr6:79338800-79339600	Flanking Active TSS	Adipose Nuclei	Adipose
13	chr6:79338800-79339600	Active TSS	Aorta	Aorta
14	chr6:79338800-79339600	Active TSS	Brain Angular Gyrus	brain
15	chr6:79338800-79339600	Active TSS	Brain Anterior Caudate	brain
16	chr6:79338800-79339600	Active TSS	Brain Inferior Temporal Lobe	brain
17	chr6:79338800-79339600	Active TSS	Brain Substantia Nigra	brain
18	chr6:79338800-79339600	Active TSS	Colon Smooth Muscle	Colon
19	chr6:79338800-79339600	Active TSS	Duodenum Smooth Muscle	Duodenum
20	chr6:79338800-79339600	Active TSS	Fetal Brain Female	brain
21	chr6:79338800-79339600	Bivalent/Poised TSS	Fetal Intestine Small	intestine
22	chr6:79338800-79339600	Active TSS	Rectal Mucosa Donor 29	rectum
23	chr6:79338800-79339600	Active TSS	Rectal Smooth Muscle	rectum
24	chr6:79338800-79339600	Active TSS	Right Ventricle	heart
25	chr6:79338800-79339600	Active TSS	HSMM	muscle
26	chr6:79338800-79339600	Active TSS	HUVEC	blood vessel
27	chr6:79338800-79339600	Active TSS	NHLF	lung
28	chr6:79339000-79339600	Active TSS	H1 Cell Line	embryonic stem cell
29	chr6:79339000-79339600	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr6:79339000-79339600	Active TSS	iPS-15b Cell Line	embryonic stem cell
31	chr6:79339000-79339600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr6:79339000-79339600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:79339000-79339600	ZNF genes & repeats	Gastric	stomach
34	chr6:79339000-79339600	Bivalent/Poised TSS	Left Ventricle	heart
35	chr6:79339200-79339600	Flanking Active TSS	Ovary	ovary
36	chr6:79339400-79339600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr6:79339400-79339600	Active TSS	Muscle Satellite Cultured Cells	--
38	chr6:79339400-79339600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr6:79339400-79339600	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr6:79339400-79339600	Flanking Bivalent TSS/Enh	Brain Dorsolateral Prefrontal Cortex	brain
41	chr6:79339400-79339600	Flanking Bivalent TSS/Enh	Fetal Intestine Large	intestine
42	chr6:79339400-79339600	Bivalent/Poised TSS	Fetal Muscle Trunk	muscle
43	chr6:79339400-79339600	Enhancers	Pancreas	Pancrea
44	chr6:79339400-79341000	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links