Variant report

Variant	rs12662206
Chromosome Location	chr6:140072052-140072053
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:139694011..139696064-chr6:140069948..140072058,2	K562	blood:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10499213	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10499214	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11962730	1.00[CEU][hapmap];1.00[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];1.00[ASN][1000 genomes]
rs11963532	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11964275	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12055436	0.82[CHB][hapmap];0.88[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12055472	0.81[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs12055843	0.87[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12664473	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17069206	0.88[JPT][hapmap]
rs17069225	0.88[CHB][hapmap];0.88[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1891808	0.83[AFR][1000 genomes]
rs1936210	0.89[ASN][1000 genomes]
rs1936214	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2096283	1.00[CEU][hapmap];1.00[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];1.00[ASN][1000 genomes]
rs2096284	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2154032	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2185923	0.88[ASN][1000 genomes]
rs2327993	0.88[ASN][1000 genomes]
rs4520026	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4535566	0.86[ASN][1000 genomes]
rs55764205	0.87[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs55966840	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs60350063	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60758082	0.88[ASN][1000 genomes]
rs6570372	0.89[ASN][1000 genomes]
rs6570373	0.90[ASN][1000 genomes]
rs6570374	0.89[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6901783	0.94[JPT][hapmap]
rs6905478	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6933318	0.94[JPT][hapmap]
rs73556090	0.88[ASN][1000 genomes]
rs73558032	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7743796	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7752001	0.89[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs7752323	0.89[ASN][1000 genomes]
rs7756866	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7769567	0.80[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7774968	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9321752	0.88[ASN][1000 genomes]
rs9373246	0.84[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs9373247	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373248	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376452	0.88[JPT][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes]
rs9376457	0.89[ASN][1000 genomes]
rs9376466	0.81[EUR][1000 genomes]
rs9385874	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9385875	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9385876	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9389715	0.89[ASN][1000 genomes]
rs9389717	0.88[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9399292	0.88[JPT][hapmap]
rs9403113	0.88[ASN][1000 genomes]
rs9403114	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9403115	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9403116	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv464065	chr6:140027836-140085873	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv604766	chr6:140027836-140085873	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv830820	chr6:140059279-140255292	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140066000-140073400	Weak transcription	HSMM	muscle
2	chr6:140066200-140072800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:140066400-140072200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr6:140066400-140074800	Weak transcription	A549	lung
5	chr6:140066800-140073400	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr6:140069200-140075800	Weak transcription	Pancreas	Pancrea
7	chr6:140070000-140072200	Weak transcription	NH-A	brain
8	chr6:140070000-140073400	Weak transcription	NHLF	lung
9	chr6:140070200-140072200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr6:140070200-140072200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:140070200-140072200	Weak transcription	Fetal Kidney	kidney
12	chr6:140070200-140072400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:140070200-140073600	Weak transcription	HSMMtube	muscle
14	chr6:140070200-140074600	Weak transcription	Liver	Liver
15	chr6:140070200-140074600	Weak transcription	Fetal Lung	lung
16	chr6:140070200-140075800	Weak transcription	Ovary	ovary
17	chr6:140070200-140075800	Weak transcription	Right Atrium	heart
18	chr6:140070200-140076000	Weak transcription	Placenta	Placenta
19	chr6:140070200-140076000	Weak transcription	Hela-S3	cervix
20	chr6:140070200-140085200	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr6:140070400-140072200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr6:140070400-140074800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr6:140070400-140075800	Weak transcription	Adipose Nuclei	Adipose
24	chr6:140070600-140075800	Weak transcription	Fetal Intestine Small	intestine
25	chr6:140070600-140076000	Weak transcription	Duodenum Mucosa	Duodenum
26	chr6:140070800-140074000	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr6:140071400-140072400	Enhancers	Fetal Heart	heart
28	chr6:140071600-140073000	Enhancers	Brain Germinal Matrix	brain
29	chr6:140071800-140072800	Enhancers	Fetal Intestine Large	intestine
30	chr6:140071800-140073000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:140071800-140073000	Enhancers	HepG2	liver
32	chr6:140071800-140076000	Enhancers	NHDF-Ad	bronchial
33	chr6:140071800-140077000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr6:140071800-140079200	Enhancers	Osteobl	bone
35	chr6:140072000-140072400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr6:140072000-140072600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:140072000-140072600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr6:140072000-140072800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
39	chr6:140072000-140073000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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