Variant report

Variant	rs12523829
Chromosome Location	chr6:37763104-37763105
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:37761965..37764146-chr6:37767297..37769364,2	MCF-7	breast:
2	chr6:37762868..37765760-chr6:37771569..37774274,2	MCF-7	breast:
3	chr6:37761178..37763195-chr6:37774802..37776873,2	MCF-7	breast:
4	chr6:37742631..37746387-chr6:37760505..37763552,3	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1212636	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs12198360	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12211975	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1979759	0.90[CEU][hapmap];0.89[CHB][hapmap];0.81[JPT][hapmap]
rs2180514	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap]
rs259672	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs259675	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap]
rs259676	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs259678	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs259683	1.00[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap]
rs259687	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap]
rs259693	0.95[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs259714	0.83[ASN][1000 genomes]
rs259717	0.83[CHB][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs259721	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs259722	0.95[CHB][hapmap];0.96[JPT][hapmap];0.93[ASN][1000 genomes]
rs259723	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4142102	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4711515	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4711522	1.00[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap]
rs6458030	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67133782	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6915506	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs6917668	1.00[CEU][hapmap]
rs6926280	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6934617	1.00[CEU][hapmap]
rs6937655	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72849334	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs72849338	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9349051	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357255	0.82[CHB][hapmap];0.81[JPT][hapmap];0.80[YRI][hapmap]
rs9369022	0.92[AMR][1000 genomes]
rs9369024	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9369025	0.88[ASN][1000 genomes]
rs9380703	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9380704	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462374	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs9470714	1.00[CEU][hapmap];0.95[CHB][hapmap];0.96[JPT][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9470723	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap]
rs9470724	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap]
rs9647620	0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37759200-37768400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:37759600-37766000	Weak transcription	Lung	lung
3	chr6:37759600-37767200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:37759600-37767200	Weak transcription	Right Atrium	heart
5	chr6:37759800-37763800	Weak transcription	Liver	Liver
6	chr6:37759800-37764000	Weak transcription	Pancreas	Pancrea
7	chr6:37759800-37764200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr6:37759800-37768600	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr6:37761000-37764200	Weak transcription	Fetal Muscle Leg	muscle
10	chr6:37761600-37766200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:37762000-37763800	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr6:37762400-37763200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr6:37762400-37763200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr6:37762400-37763200	Enhancers	HSMM	muscle
15	chr6:37762400-37763200	Enhancers	NHDF-Ad	bronchial
16	chr6:37762400-37763200	Enhancers	NHEK	skin
17	chr6:37762400-37763200	Enhancers	Osteobl	bone
18	chr6:37762400-37763400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr6:37762400-37763400	Enhancers	HSMMtube	muscle
20	chr6:37762400-37763600	Enhancers	Muscle Satellite Cultured Cells	--
21	chr6:37762400-37763600	Enhancers	Psoas Muscle	Psoas
22	chr6:37762400-37764200	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr6:37762400-37766000	Enhancers	HepG2	liver
24	chr6:37762600-37763200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr6:37762600-37764200	Enhancers	NHLF	lung
26	chr6:37763000-37763200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:37763000-37764000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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