Variant report

Variant	rs820563
Chromosome Location	chr3:112460940-112460941
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:112358089..112359762-chr3:112460166..112463073,2	MCF-7	breast:

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs4682116	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs820542	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs820553	0.86[EUR][1000 genomes]
rs820559	0.86[EUR][1000 genomes]
rs820567	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3329419	chr3:112236688-112620544	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv432477	chr3:112390310-112603310	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112452800-112461200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:112453400-112461400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr3:112453600-112461400	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr3:112453800-112461000	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr3:112454200-112463800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr3:112454600-112461200	Enhancers	Primary T killer memory cells from peripheral blood	blood
7	chr3:112454600-112461800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr3:112455400-112461000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
9	chr3:112455400-112461400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr3:112456400-112464000	Weak transcription	K562	blood
11	chr3:112457200-112461200	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr3:112457200-112461200	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr3:112458400-112465600	Weak transcription	NHLF	lung
14	chr3:112458400-112467800	Weak transcription	Stomach Mucosa	stomach
15	chr3:112458600-112461000	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr3:112458800-112467200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr3:112459000-112461200	Enhancers	Primary T cells from cord blood	blood
18	chr3:112459000-112461400	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr3:112459000-112463800	Weak transcription	Thymus	Thymus
20	chr3:112459000-112464000	Weak transcription	GM12878-XiMat	blood
21	chr3:112459000-112467000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr3:112459000-112470600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr3:112459200-112463000	Weak transcription	Fetal Thymus	thymus
24	chr3:112459200-112466400	Weak transcription	Primary B cells from peripheral blood	blood
25	chr3:112459200-112467800	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr3:112459400-112461000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
27	chr3:112459800-112462600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:112460200-112464800	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr3:112460600-112461000	Enhancers	Primary T cells fromperipheralblood	blood
30	chr3:112460600-112461200	Enhancers	NHDF-Ad	bronchial
31	chr3:112460600-112461200	Enhancers	Osteobl	bone
32	chr3:112460800-112461000	Enhancers	Primary B cells from cord blood	blood
33	chr3:112460800-112465600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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