Variant report

Variant	rs28546939
Chromosome Location	chr9:14163950-14163951
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:14157830..14160337-chr9:14162200..14164831,2	MCF-7	breast:
2	chr9:14162427..14164558-chr9:14167650..14169724,2	MCF-7	breast:
3	chr9:14163618..14165126-chr9:14226393..14229305,2	K562	blood:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10756532	0.95[ASN][1000 genomes]
rs10810104	0.85[ASN][1000 genomes]
rs10961399	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10961402	0.87[EUR][1000 genomes]
rs12377502	0.83[EUR][1000 genomes]
rs13299433	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2382450	0.85[ASN][1000 genomes]
rs2890982	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4551459	0.84[ASN][1000 genomes]
rs7034162	0.83[ASN][1000 genomes]
rs9776572	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033764	chr9:13764918-14226168	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv892593	chr9:13948798-14233159	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1023303	chr9:14025605-14286269	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv540069	chr9:14025605-14286269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv429998	chr9:14043516-14214688	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv892595	chr9:14129951-14168029	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv892596	chr9:14145487-14208724	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv892597	chr9:14163383-14233159	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14116600-14179200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr9:14117000-14171200	Weak transcription	Hela-S3	cervix
3	chr9:14123800-14198600	Weak transcription	Gastric	stomach
4	chr9:14131800-14173200	Weak transcription	Pancreas	Pancrea
5	chr9:14134000-14181000	Weak transcription	Ovary	ovary
6	chr9:14156800-14175600	Weak transcription	Liver	Liver
7	chr9:14157400-14164400	Weak transcription	Fetal Brain Male	brain
8	chr9:14157600-14173600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr9:14159600-14164200	Weak transcription	Brain Anterior Caudate	brain
10	chr9:14159600-14164400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:14159800-14164200	Weak transcription	HMEC	breast
12	chr9:14159800-14164800	Weak transcription	Psoas Muscle	Psoas
13	chr9:14159800-14164800	Weak transcription	Right Ventricle	heart
14	chr9:14159800-14165000	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr9:14159800-14167200	Weak transcription	Left Ventricle	heart
16	chr9:14159800-14169200	Weak transcription	Aorta	Aorta
17	chr9:14159800-14176600	Weak transcription	Fetal Muscle Trunk	muscle
18	chr9:14159800-14180200	Weak transcription	Fetal Stomach	stomach
19	chr9:14160000-14164200	Weak transcription	Rectal Smooth Muscle	rectum
20	chr9:14160000-14164200	Weak transcription	NHEK	skin
21	chr9:14160000-14164400	Weak transcription	Brain Substantia Nigra	brain
22	chr9:14160000-14164800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr9:14160000-14168200	Weak transcription	Fetal Muscle Leg	muscle
24	chr9:14160000-14169600	Weak transcription	Right Atrium	heart
25	chr9:14160200-14164200	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr9:14160200-14164400	Weak transcription	Brain Angular Gyrus	brain
27	chr9:14160200-14164800	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr9:14160200-14165200	Weak transcription	Fetal Brain Female	brain
29	chr9:14160400-14164200	Weak transcription	Brain Hippocampus Middle	brain
30	chr9:14160600-14164200	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr9:14160600-14164200	Weak transcription	Fetal Heart	heart
32	chr9:14160600-14164200	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr9:14160600-14164400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr9:14160600-14164400	Weak transcription	Brain Cingulate Gyrus	brain
35	chr9:14160600-14165000	Weak transcription	Brain Germinal Matrix	brain
36	chr9:14160600-14165000	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr9:14160600-14181400	Weak transcription	HSMM	muscle
38	chr9:14160800-14165200	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr9:14161000-14164800	Weak transcription	A549	lung
40	chr9:14161000-14170600	Weak transcription	HUVEC	blood vessel
41	chr9:14162000-14164200	Weak transcription	Small Intestine	intestine
42	chr9:14162000-14170200	Weak transcription	Adipose Nuclei	Adipose
43	chr9:14162200-14164200	Weak transcription	Fetal Lung	lung
44	chr9:14162400-14175400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr9:14162600-14164200	Enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr9:14162600-14164200	Weak transcription	Colon Smooth Muscle	Colon
47	chr9:14163200-14164600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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