Variant report

Variant	rs2250628
Chromosome Location	chr5:14861683-14861684
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	chr5:14850589..14853387-chr5:14861534..14863865,2	MCF-7	breast:
2	chr5:14861537..14863367-chr5:14871882..14873809,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000154122	Chromatin interaction
ENSG00000272057	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs2250476	1.00[EUR][1000 genomes]
rs2250590	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2250599	1.00[EUR][1000 genomes]
rs2250600	1.00[EUR][1000 genomes]
rs2250716	1.00[EUR][1000 genomes]
rs2254011	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2642681	1.00[EUR][1000 genomes]
rs923959	1.00[EUR][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	nsv1018187	chr5:14385164-15127103	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv830212	chr5:14784197-14966683	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
3	esv2753381	chr5:14814900-14882800	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
4	esv2755533	chr5:14814900-14882800	Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
5	esv2755538	chr5:14814900-14927500	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
6	nsv530221	chr5:14859687-15364470	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
7	esv3343715	chr5:14861614-14861980	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:14824800-14869600	Weak transcription	Stomach Smooth Muscle	stomach
2	chr5:14830400-14866400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr5:14831000-14870400	Weak transcription	Spleen	Spleen
4	chr5:14835600-14869000	Weak transcription	NHDF-Ad	bronchial
5	chr5:14835800-14864200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr5:14837400-14869400	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr5:14840200-14864600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr5:14844800-14869200	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr5:14848800-14861800	Weak transcription	Adipose Nuclei	Adipose
10	chr5:14848800-14870000	Weak transcription	Thymus	Thymus
11	chr5:14849200-14869800	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr5:14850600-14863000	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr5:14850800-14869000	Weak transcription	Brain Germinal Matrix	brain
14	chr5:14851400-14863000	Weak transcription	Brain Anterior Caudate	brain
15	chr5:14851400-14863200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr5:14851600-14861800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr5:14851600-14869800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr5:14851800-14862800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr5:14853200-14869000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr5:14854800-14863000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr5:14855400-14862400	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr5:14855400-14868800	Weak transcription	Hela-S3	cervix
23	chr5:14855400-14870000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr5:14855400-14870000	Weak transcription	Placenta	Placenta
25	chr5:14855600-14863600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr5:14855600-14863800	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr5:14856600-14869000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr5:14857400-14862400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr5:14857400-14869000	Weak transcription	Primary T cells from cord blood	blood
30	chr5:14859600-14861800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr5:14859600-14864600	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr5:14859800-14862000	Enhancers	Skeletal Muscle Male	skeletal muscle
33	chr5:14859800-14863000	Enhancers	Fetal Intestine Large	intestine
34	chr5:14859800-14866200	Enhancers	Fetal Heart	heart
35	chr5:14860000-14863800	Enhancers	Right Ventricle	heart
36	chr5:14860200-14866000	Enhancers	Brain Substantia Nigra	brain
37	chr5:14860400-14862600	Weak transcription	Esophagus	oesophagus
38	chr5:14860400-14862600	Weak transcription	Fetal Thymus	thymus
39	chr5:14860400-14864200	Weak transcription	Ovary	ovary
40	chr5:14860400-14868800	Weak transcription	Dnd41	blood
41	chr5:14860600-14861800	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr5:14860600-14863200	Weak transcription	Brain Angular Gyrus	brain
43	chr5:14860600-14863400	Enhancers	Fetal Intestine Small	intestine
44	chr5:14860800-14862400	Enhancers	Pancreas	Pancrea
45	chr5:14860800-14862600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr5:14860800-14862600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr5:14860800-14869200	Weak transcription	HMEC	breast
48	chr5:14860800-14869400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr5:14861000-14864600	Enhancers	Psoas Muscle	Psoas
50	chr5:14861200-14861800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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