Variant report

Variant	rs826373
Chromosome Location	chr3:24163773-24163774
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:24162827..24165173-chr3:24166788..24169221,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11129139	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12490512	0.88[EUR][1000 genomes]
rs12491272	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12492765	0.87[EUR][1000 genomes]
rs12498129	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4416338	0.87[EUR][1000 genomes]
rs55920816	0.87[EUR][1000 genomes]
rs57144868	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs57903454	0.88[EUR][1000 genomes]
rs58523227	0.92[EUR][1000 genomes]
rs59374114	0.88[EUR][1000 genomes]
rs59461522	0.89[EUR][1000 genomes]
rs59715267	0.88[EUR][1000 genomes]
rs59911620	0.88[EUR][1000 genomes]
rs60635484	0.88[EUR][1000 genomes]
rs60706278	0.89[EUR][1000 genomes]
rs62253424	0.87[EUR][1000 genomes]
rs62253427	0.89[EUR][1000 genomes]
rs62255803	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62255804	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6769284	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6769403	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6807599	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73134512	0.86[EUR][1000 genomes]
rs7428009	0.88[EUR][1000 genomes]
rs7623348	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7636932	0.88[EUR][1000 genomes]
rs826371	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs826372	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs826374	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs826375	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834639	chr3:24037113-24233925	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 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	chr3:24149000-24164000	Weak transcription	Left Ventricle	heart
2	chr3:24155800-24164000	Weak transcription	Fetal Lung	lung
3	chr3:24155800-24169600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:24156400-24187800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:24157000-24163800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:24157400-24173000	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr3:24158800-24169800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
8	chr3:24158800-24170200	Strong transcription	Liver	Liver
9	chr3:24159600-24167600	Weak transcription	Fetal Stomach	stomach
10	chr3:24159800-24168200	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr3:24159800-24169600	Weak transcription	Colon Smooth Muscle	Colon
12	chr3:24160000-24168200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr3:24160400-24173000	Weak transcription	Primary hematopoietic stem cells	blood
14	chr3:24161000-24170200	Strong transcription	Fetal Intestine Small	intestine
15	chr3:24161200-24163800	Weak transcription	Adipose Nuclei	Adipose
16	chr3:24161200-24163800	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr3:24161200-24164400	Weak transcription	NHDF-Ad	bronchial
18	chr3:24161200-24164600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr3:24161200-24164600	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr3:24161200-24164600	Weak transcription	Right Ventricle	heart
21	chr3:24161200-24164800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr3:24161200-24165000	Weak transcription	Osteobl	bone
23	chr3:24161200-24167200	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr3:24161200-24173000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr3:24161200-24176400	Weak transcription	Pancreas	Pancrea
26	chr3:24161400-24164400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr3:24161400-24164400	Weak transcription	NHLF	lung
28	chr3:24161400-24164600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr3:24161400-24164600	Weak transcription	A549	lung
30	chr3:24161400-24164800	Weak transcription	HMEC	breast
31	chr3:24161400-24169000	Weak transcription	Esophagus	oesophagus
32	chr3:24161400-24169600	Weak transcription	Gastric	stomach
33	chr3:24161400-24169600	Weak transcription	Lung	lung
34	chr3:24161400-24170600	Weak transcription	Psoas Muscle	Psoas
35	chr3:24161600-24164000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr3:24161800-24173000	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr3:24162000-24164000	Weak transcription	Stomach Smooth Muscle	stomach
38	chr3:24162000-24168200	Weak transcription	Brain Angular Gyrus	brain
39	chr3:24162200-24163800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr3:24162200-24164600	Weak transcription	Hela-S3	cervix
41	chr3:24162400-24170000	Weak transcription	Rectal Smooth Muscle	rectum
42	chr3:24162600-24168200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr3:24162800-24178200	Weak transcription	Spleen	Spleen
44	chr3:24163000-24164800	Strong transcription	Aorta	Aorta
45	chr3:24163000-24165800	Strong transcription	Fetal Intestine Large	intestine
46	chr3:24163000-24168400	Weak transcription	HepG2	liver
47	chr3:24163200-24165600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links