Variant report

Variant	rs10471828
Chromosome Location	chr5:52333322-52333323
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	chr5:52326404..52328383-chr5:52333260..52335027,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs3212426	0.88[AFR][1000 genomes]
rs3212645	1.00[YRI][hapmap]
rs9292004	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv462187	chr5:51758804-52333420	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv598163	chr5:51758804-52333420	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv471013	chr5:51779197-52339114	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
4	nsv949005	chr5:52188028-52808229	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv830296	chr5:52209528-52410253	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv880425	chr5:52291279-52345868	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv881652	chr5:52323568-52385312	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:52307000-52333800	Weak transcription	Gastric	stomach
2	chr5:52314200-52348000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr5:52317600-52333600	Weak transcription	Colonic Mucosa	Colon
4	chr5:52324200-52334200	Weak transcription	Spleen	Spleen
5	chr5:52324400-52356400	Weak transcription	Brain Anterior Caudate	brain
6	chr5:52327800-52333800	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr5:52327800-52334400	Weak transcription	Pancreas	Pancrea
8	chr5:52327800-52344200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr5:52328000-52369200	Weak transcription	Fetal Intestine Small	intestine
10	chr5:52328400-52333800	Weak transcription	Brain Cingulate Gyrus	brain
11	chr5:52328600-52335200	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr5:52328800-52335800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr5:52328800-52348000	Weak transcription	Fetal Intestine Large	intestine
14	chr5:52329000-52334200	Weak transcription	Lung	lung
15	chr5:52329400-52335600	Weak transcription	Dnd41	blood
16	chr5:52331000-52333800	Enhancers	Hela-S3	cervix
17	chr5:52331000-52336200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr5:52331000-52337000	Weak transcription	Fetal Kidney	kidney
19	chr5:52331600-52333400	Genic enhancers	HepG2	liver
20	chr5:52331800-52333400	Enhancers	NHDF-Ad	bronchial
21	chr5:52331800-52333600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr5:52331800-52333800	Enhancers	NHLF	lung
23	chr5:52331800-52334400	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr5:52331800-52334800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr5:52331800-52334800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr5:52331800-52335200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr5:52331800-52337200	Enhancers	HUVEC	blood vessel
28	chr5:52332000-52334200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr5:52332000-52334400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr5:52332000-52334600	Enhancers	NH-A	brain
31	chr5:52332000-52334600	Enhancers	Osteobl	bone
32	chr5:52332000-52334800	Enhancers	Brain Hippocampus Middle	brain
33	chr5:52332200-52334000	Enhancers	Small Intestine	intestine
34	chr5:52332400-52333400	Enhancers	Cortex derived primary cultured neurospheres	brain
35	chr5:52332400-52333600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr5:52332400-52334200	Weak transcription	Right Atrium	heart
37	chr5:52332400-52334600	Enhancers	Muscle Satellite Cultured Cells	--
38	chr5:52332600-52333800	Enhancers	Colon Smooth Muscle	Colon
39	chr5:52332600-52333800	Enhancers	Stomach Smooth Muscle	stomach
40	chr5:52332800-52333400	Enhancers	Brain Inferior Temporal Lobe	brain
41	chr5:52332800-52333600	Enhancers	HMEC	breast
42	chr5:52332800-52334200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr5:52332800-52334200	Weak transcription	Esophagus	oesophagus
44	chr5:52332800-52334800	Enhancers	Stomach Mucosa	stomach
45	chr5:52333000-52333400	Enhancers	Duodenum Mucosa	Duodenum
46	chr5:52333000-52333400	Flanking Active TSS	NHEK	skin
47	chr5:52333000-52333600	Enhancers	Fetal Lung	lung
48	chr5:52333000-52333600	Enhancers	Rectal Smooth Muscle	rectum
49	chr5:52333000-52334000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr5:52333000-52334000	Enhancers	HSMM	muscle

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