Variant report

Variant	rs6776876
Chromosome Location	chr3:52867811-52867812
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:52867798..52869834-chr3:52876401..52878497,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000248592	Chromatin interaction
ENSG00000213533	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs2710317	0.85[AFR][1000 genomes]
rs4687558	0.92[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834698	chr3:52749983-52928219	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
2	esv2762328	chr3:52774884-53002150	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	esv3446915	chr3:52786850-53049217	Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	esv1810629	chr3:52817031-52869635	Weak transcription Active TSS Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv876797	chr3:52817675-52873984	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	esv3435205	chr3:52867536-52867892	Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Enhancers Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52850200-52868400	Weak transcription	Colonic Mucosa	Colon
2	chr3:52852200-52869200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr3:52852800-52869200	Weak transcription	Primary B cells from cord blood	blood
4	chr3:52853000-52868000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr3:52854200-52874200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr3:52854800-52869200	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr3:52854800-52888400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:52856000-52875000	Weak transcription	Fetal Intestine Large	intestine
9	chr3:52856400-52868200	Weak transcription	Fetal Lung	lung
10	chr3:52857000-52868600	Weak transcription	Primary B cells from peripheral blood	blood
11	chr3:52858000-52868400	Weak transcription	Brain Germinal Matrix	brain
12	chr3:52858800-52868800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr3:52858800-52868800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr3:52858800-52869200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr3:52859400-52869000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr3:52860200-52869000	Weak transcription	Fetal Intestine Small	intestine
17	chr3:52861200-52868800	Weak transcription	Lung	lung
18	chr3:52862000-52869200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr3:52862000-52882600	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr3:52863200-52872600	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr3:52864400-52875800	Strong transcription	Primary neutrophils fromperipheralblood	blood
22	chr3:52865000-52869400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr3:52865200-52869000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr3:52865600-52874200	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr3:52865600-52875200	Weak transcription	Dnd41	blood
26	chr3:52865800-52869000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr3:52865800-52878600	Weak transcription	Small Intestine	intestine
28	chr3:52866000-52868200	Weak transcription	Brain Angular Gyrus	brain
29	chr3:52866000-52868400	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr3:52866000-52869800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr3:52866000-52884800	Weak transcription	HMEC	breast
32	chr3:52866200-52868200	Weak transcription	Ovary	ovary
33	chr3:52866200-52868400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr3:52866200-52868600	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
35	chr3:52866200-52869000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr3:52866200-52869200	Weak transcription	Placenta	Placenta
37	chr3:52866200-52869600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr3:52866200-52870200	Weak transcription	Gastric	stomach
39	chr3:52866200-52872600	Weak transcription	Duodenum Mucosa	Duodenum
40	chr3:52866200-52872600	Weak transcription	Esophagus	oesophagus
41	chr3:52866200-52885200	Weak transcription	NHEK	skin
42	chr3:52866400-52868000	Strong transcription	Fetal Stomach	stomach
43	chr3:52866400-52868400	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr3:52866400-52868400	Weak transcription	Rectal Smooth Muscle	rectum
45	chr3:52866400-52868600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr3:52866400-52868800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr3:52866400-52868800	Weak transcription	Colon Smooth Muscle	Colon
48	chr3:52866400-52869800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr3:52866400-52871800	Strong transcription	Primary T cells from cord blood	blood
50	chr3:52866400-52872400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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