Variant report

Variant	rs57687910
Chromosome Location	chr3:54462105-54462106
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	chr3:54462064..54462651-chr3:55047338..55047880,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs55967821	0.82[AFR][1000 genomes]
rs56983768	0.88[AFR][1000 genomes]
rs58227543	0.87[AFR][1000 genomes]
rs60024970	0.87[AFR][1000 genomes]
rs72973150	0.88[AFR][1000 genomes]
rs72973152	0.88[AFR][1000 genomes]
rs72988023	0.83[AFR][1000 genomes]
rs72988031	0.82[AFR][1000 genomes]
rs72988033	0.82[AFR][1000 genomes]
rs72988051	0.82[AFR][1000 genomes]
rs73841999	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014595	chr3:53944473-54846754	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv817210	chr3:54365684-54511164	Enhancers Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv428084	chr3:54404258-54742756	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1010348	chr3:54435563-54508115	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv876807	chr3:54453655-54501086	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv998970	chr3:54455794-54516789	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv876808	chr3:54459688-54501086	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv876809	chr3:54459688-54501086	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:54458200-54463000	Enhancers	Hela-S3	cervix
2	chr3:54458800-54462600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:54459800-54462400	Enhancers	Colon Smooth Muscle	Colon
4	chr3:54460000-54462400	Enhancers	HSMMtube	muscle
5	chr3:54460400-54463000	Enhancers	Rectal Smooth Muscle	rectum
6	chr3:54460600-54462400	Enhancers	HSMM	muscle
7	chr3:54460600-54463000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr3:54460600-54463600	Enhancers	NHDF-Ad	bronchial
9	chr3:54461000-54463200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr3:54461200-54463200	Enhancers	Fetal Muscle Leg	muscle
11	chr3:54461400-54462200	Weak transcription	Brain Germinal Matrix	brain
12	chr3:54461400-54462200	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr3:54461600-54462200	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr3:54461600-54462400	Enhancers	Osteobl	bone
15	chr3:54461600-54463400	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr3:54461600-54463400	Enhancers	Fetal Brain Male	brain
17	chr3:54461800-54462200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:54461800-54462200	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr3:54461800-54462200	Enhancers	Fetal Brain Female	brain
20	chr3:54461800-54462200	Enhancers	Placenta	Placenta
21	chr3:54461800-54462400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
22	chr3:54461800-54462400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr3:54461800-54463000	Enhancers	NHLF	lung
24	chr3:54462000-54462200	Enhancers	NH-A	brain
25	chr3:54462000-54462400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr3:54462000-54462400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr3:54462000-54462400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr3:54462000-54462400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr3:54462000-54462400	Enhancers	Brain Inferior Temporal Lobe	brain
30	chr3:54462000-54462400	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr3:54462000-54462800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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