Variant report

Variant	rs28626340
Chromosome Location	chr14:39746804-39746805
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	chr14:39742297..39745103-chr14:39746417..39748678,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10131617	0.90[ASN][1000 genomes]
rs10133417	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10134143	0.85[ASN][1000 genomes]
rs10134365	0.91[ASN][1000 genomes]
rs10138024	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10151659	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10162550	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11620695	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11621264	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11621330	0.84[ASN][1000 genomes]
rs11621822	0.86[ASN][1000 genomes]
rs11624839	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11626150	0.85[ASN][1000 genomes]
rs11627580	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11628075	0.84[ASN][1000 genomes]
rs11845046	0.87[ASN][1000 genomes]
rs12587713	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12588386	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12588728	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12589831	0.86[ASN][1000 genomes]
rs12882709	0.86[ASN][1000 genomes]
rs12892482	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12894960	0.83[ASN][1000 genomes]
rs12896838	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1594842	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17109021	0.86[ASN][1000 genomes]
rs17109028	0.86[ASN][1000 genomes]
rs17109056	0.87[ASN][1000 genomes]
rs17109073	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1897792	0.86[ASN][1000 genomes]
rs2274399	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28680827	0.85[ASN][1000 genomes]
rs35065854	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35184650	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35201135	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35613410	0.86[ASN][1000 genomes]
rs7143646	0.85[ASN][1000 genomes]
rs7150735	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8004348	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs956108	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9671943	0.82[EUR][1000 genomes]
rs9671953	0.81[EUR][1000 genomes];0.80[ASN][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	nsv1053133	chr14:39657535-39770729	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1037183	chr14:39736939-39949233	Weak transcription Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv542048	chr14:39736939-39949233	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' 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

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39737000-39751800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr14:39737800-39748800	Weak transcription	Right Ventricle	heart
3	chr14:39737800-39750800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr14:39737800-39763800	Weak transcription	Gastric	stomach
5	chr14:39738000-39748800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr14:39738000-39750600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr14:39738000-39752000	Weak transcription	Stomach Mucosa	stomach
8	chr14:39738000-39763800	Weak transcription	HSMM	muscle
9	chr14:39738200-39747000	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr14:39738200-39748800	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr14:39738200-39748800	Weak transcription	Fetal Kidney	kidney
12	chr14:39738200-39748800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr14:39738200-39748800	Weak transcription	Osteobl	bone
14	chr14:39738200-39751800	Weak transcription	Colonic Mucosa	Colon
15	chr14:39738200-39751800	Weak transcription	Rectal Smooth Muscle	rectum
16	chr14:39738200-39759200	Weak transcription	NH-A	brain
17	chr14:39738200-39763800	Weak transcription	Brain Angular Gyrus	brain
18	chr14:39738200-39763800	Weak transcription	HSMMtube	muscle
19	chr14:39738200-39766200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr14:39738200-39813800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr14:39738600-39763800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr14:39738800-39747800	Weak transcription	Primary B cells from peripheral blood	blood
23	chr14:39738800-39748800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr14:39738800-39748800	Weak transcription	Adipose Nuclei	Adipose
25	chr14:39738800-39748800	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr14:39738800-39748800	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr14:39738800-39764800	Weak transcription	NHDF-Ad	bronchial
28	chr14:39739000-39747200	Weak transcription	Duodenum Mucosa	Duodenum
29	chr14:39739000-39748800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr14:39739000-39751800	Weak transcription	Brain Anterior Caudate	brain
31	chr14:39739200-39747600	Weak transcription	Monocytes-CD14+_RO01746	blood
32	chr14:39739200-39748800	Weak transcription	Brain Hippocampus Middle	brain
33	chr14:39739200-39748800	Weak transcription	HUVEC	blood vessel
34	chr14:39739200-39764000	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr14:39739400-39747200	Weak transcription	Primary neutrophils fromperipheralblood	blood
36	chr14:39739400-39748800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr14:39739400-39749200	Weak transcription	Small Intestine	intestine
38	chr14:39739400-39758200	Weak transcription	NHEK	skin
39	chr14:39739800-39747000	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr14:39739800-39763400	Weak transcription	Lung	lung
41	chr14:39739800-39766400	Weak transcription	Aorta	Aorta
42	chr14:39740000-39748800	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr14:39740000-39748800	Weak transcription	A549	lung
44	chr14:39740000-39751600	Weak transcription	Ovary	ovary
45	chr14:39740400-39748600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr14:39740400-39748800	Weak transcription	Primary T cells from cord blood	blood
47	chr14:39740400-39751800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr14:39741000-39748800	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr14:39741200-39748800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr14:39741200-39748800	Weak transcription	Thymus	Thymus

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