Variant report

Variant	rs62251864
Chromosome Location	chr3:53559907-53559908
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:53559435..53562395-chr3:53622216..53624896,2	MCF-7	breast:
2	chr3:53554926..53557918-chr3:53559741..53561416,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1074235	0.93[ASN][1000 genomes]
rs1547949	0.91[ASN][1000 genomes]
rs17053168	0.85[EUR][1000 genomes]
rs33999362	0.83[ASN][1000 genomes]
rs3774428	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3774439	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3774440	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3774441	0.85[EUR][1000 genomes]
rs3821847	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59422128	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59512909	0.94[ASN][1000 genomes]
rs62251868	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62251869	0.93[ASN][1000 genomes]
rs62251870	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62251903	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62251904	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6764908	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72957281	0.96[AFR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs740756	0.94[ASN][1000 genomes]
rs9311502	0.95[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	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53540600-53560000	Weak transcription	Pancreas	Pancrea
2	chr3:53552400-53568400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:53552600-53560200	Weak transcription	Lung	lung
4	chr3:53553400-53562800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr3:53554800-53560400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr3:53556800-53560800	Enhancers	Rectal Smooth Muscle	rectum
7	chr3:53557000-53560800	Enhancers	Fetal Stomach	stomach
8	chr3:53557200-53560200	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr3:53558200-53560000	Enhancers	Fetal Lung	lung
10	chr3:53558200-53560400	Flanking Active TSS	Stomach Smooth Muscle	stomach
11	chr3:53558400-53560000	Enhancers	Brain Angular Gyrus	brain
12	chr3:53558800-53560000	Enhancers	Fetal Brain Male	brain
13	chr3:53559000-53560000	Weak transcription	Right Atrium	heart
14	chr3:53559000-53560600	Genic enhancers	Fetal Intestine Small	intestine
15	chr3:53559200-53560400	Enhancers	Skeletal Muscle Male	skeletal muscle
16	chr3:53559200-53563800	Weak transcription	Aorta	Aorta
17	chr3:53559400-53560400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr3:53559400-53560400	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr3:53559400-53561000	Enhancers	Colon Smooth Muscle	Colon
20	chr3:53559600-53560400	Enhancers	Fetal Heart	heart
21	chr3:53559800-53560000	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr3:53559800-53560400	Enhancers	Fetal Muscle Leg	muscle
23	chr3:53559800-53560400	Enhancers	Ovary	ovary
24	chr3:53559800-53560400	Enhancers	Hela-S3	cervix
25	chr3:53559800-53560600	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr3:53559800-53560800	Genic enhancers	Fetal Intestine Large	intestine

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