Variant report

Variant	rs62428725
Chromosome Location	chr6:133662570-133662571
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:133608197..133610275-chr6:133661303..133663477,2	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10484669	0.84[ASN][1000 genomes]
rs12173440	0.86[EUR][1000 genomes]
rs12175835	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12191026	1.00[AFR][1000 genomes]
rs12196069	1.00[AFR][1000 genomes]
rs12196492	1.00[AFR][1000 genomes]
rs12199138	1.00[AFR][1000 genomes]
rs12200393	1.00[AFR][1000 genomes]
rs12210216	1.00[AFR][1000 genomes]
rs12211999	1.00[AFR][1000 genomes]
rs1336520	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1886983	0.86[ASN][1000 genomes]
rs1998836	0.84[ASN][1000 genomes]
rs2095602	0.86[ASN][1000 genomes]
rs2095603	0.86[ASN][1000 genomes]
rs28405267	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34751763	0.92[ASN][1000 genomes]
rs5025271	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs62428596	1.00[AFR][1000 genomes]
rs62428597	1.00[AFR][1000 genomes]
rs62428663	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62428664	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62428665	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62428666	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62428668	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62428724	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62428726	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62430313	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs62430315	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62430317	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62430318	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62430319	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62431672	0.81[EUR][1000 genomes]
rs62431677	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62431680	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62431681	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6919155	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73559612	0.86[ASN][1000 genomes]
rs73559615	0.86[ASN][1000 genomes]
rs742300	0.84[ASN][1000 genomes]
rs745091	0.83[ASN][1000 genomes]
rs7746390	1.00[AFR][1000 genomes]
rs9373043	1.00[AFR][1000 genomes]
rs9373044	0.83[EUR][1000 genomes]
rs9373045	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9373046	0.88[EUR][1000 genomes]
rs9373047	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9375955	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9389066	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs9399055	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs9399057	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9402501	0.82[EUR][1000 genomes]
rs9402502	0.88[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886680	chr6:133613759-133663021	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133654600-133667800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr6:133658400-133662800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:133659000-133663000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr6:133660400-133664000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr6:133661200-133663400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr6:133661200-133663400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:133661400-133662800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr6:133661400-133663400	Enhancers	Osteobl	bone
9	chr6:133661400-133663600	Enhancers	Muscle Satellite Cultured Cells	--
10	chr6:133661400-133663800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:133661600-133663400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr6:133661600-133663400	Flanking Active TSS	A549	lung
13	chr6:133661600-133663600	Enhancers	NH-A	brain
14	chr6:133661800-133663200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:133662000-133663000	Weak transcription	Gastric	stomach
16	chr6:133662000-133663200	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr6:133662200-133679200	Weak transcription	Psoas Muscle	Psoas
18	chr6:133662400-133663200	Weak transcription	HMEC	breast
19	chr6:133662400-133664600	Enhancers	Hela-S3	cervix

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