Variant report

Variant	rs6777624
Chromosome Location	chr3:25079398-25079399
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:25079124..25081667-chr3:25084641..25087586,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs13064047	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13067187	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1574901	0.82[EUR][1000 genomes]
rs1604007	0.90[EUR][1000 genomes]
rs17015670	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4484159	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6419850	0.82[EUR][1000 genomes]
rs6550943	0.87[EUR][1000 genomes]
rs6766372	0.87[EUR][1000 genomes]
rs6775433	0.81[EUR][1000 genomes]
rs6777955	0.88[EUR][1000 genomes]
rs9809401	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9866836	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs988268	0.89[EUR][1000 genomes]
rs994267	0.82[EUR][1000 genomes]

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	nsv834644	chr3:24936987-25112610	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv589955	chr3:24987823-25113358	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:25070000-25086600	Weak transcription	Left Ventricle	heart
2	chr3:25074200-25083400	Weak transcription	Right Atrium	heart
3	chr3:25075200-25086600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:25076200-25080000	Weak transcription	Brain Anterior Caudate	brain
5	chr3:25076400-25080400	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:25077200-25079800	Enhancers	NHDF-Ad	bronchial
7	chr3:25077200-25080400	Enhancers	NHLF	lung
8	chr3:25077800-25081000	Enhancers	Fetal Lung	lung
9	chr3:25077800-25081000	Enhancers	Fetal Stomach	stomach
10	chr3:25078000-25079600	Enhancers	Stomach Smooth Muscle	stomach
11	chr3:25078000-25080800	Enhancers	Fetal Kidney	kidney
12	chr3:25078000-25080800	Enhancers	Rectal Smooth Muscle	rectum
13	chr3:25078200-25079400	Enhancers	Psoas Muscle	Psoas
14	chr3:25078200-25080600	Enhancers	NH-A	brain
15	chr3:25078200-25081400	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr3:25078400-25080600	Enhancers	Colon Smooth Muscle	Colon
17	chr3:25078600-25079400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:25078600-25080200	Enhancers	Muscle Satellite Cultured Cells	--
19	chr3:25078800-25079600	Enhancers	Duodenum Smooth Muscle	Duodenum
20	chr3:25078800-25080600	Enhancers	Osteobl	bone
21	chr3:25079000-25079400	Enhancers	Adipose Nuclei	Adipose
22	chr3:25079000-25081000	Enhancers	Skeletal Muscle Female	skeletal muscle
23	chr3:25079200-25079400	Enhancers	Aorta	Aorta
24	chr3:25079200-25079400	Enhancers	Fetal Heart	heart
25	chr3:25079200-25079600	Enhancers	Brain Hippocampus Middle	brain
26	chr3:25079200-25080000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr3:25079200-25080600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr3:25079200-25080800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr3:25079200-25080800	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr3:25079200-25086600	Weak transcription	Fetal Muscle Leg	muscle

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