Variant report

Variant	rs826215
Chromosome Location	chr3:24227711-24227712
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24226799..24228075-chr3:24279198..24280289,8	MCF-7	breast:
2	chr3:24227165..24227901-chr3:24724976..24725696,3	MCF-7	breast:
3	chr3:24040049..24041089-chr3:24227019..24228043,3	MCF-7	breast:
4	chr3:24227567..24229644-chr3:24275208..24278137,2	MCF-7	breast:
5	chr3:24227147..24228071-chr3:24641147..24641703,2	K562	blood:
6	chr3:24227532..24228092-chr3:24279425..24280173,2	K562	blood:
7	chr3:24227575..24229278-chr3:24535483..24537520,2	K562	blood:

Variant related genes	Relation type
ENSG00000151090	Chromatin interaction
ENSG00000228791	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs1667737	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs826216	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs865440	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
3	nsv3733	chr3:24216577-24261749	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv3384500	chr3:24224448-24227746	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24186200-24230800	Weak transcription	Fetal Intestine Large	intestine
2	chr3:24223200-24234400	Weak transcription	HepG2	liver
3	chr3:24223400-24233400	Weak transcription	Liver	Liver
4	chr3:24225000-24232800	Weak transcription	Fetal Lung	lung
5	chr3:24225800-24227800	Enhancers	Skeletal Muscle Male	skeletal muscle
6	chr3:24225800-24228000	Enhancers	Psoas Muscle	Psoas
7	chr3:24225800-24228200	Enhancers	Skeletal Muscle Female	skeletal muscle
8	chr3:24226000-24228800	Enhancers	NHDF-Ad	bronchial
9	chr3:24226200-24227800	Enhancers	Adipose Nuclei	Adipose
10	chr3:24226400-24230000	Weak transcription	Aorta	Aorta
11	chr3:24227000-24227800	Enhancers	Left Ventricle	heart
12	chr3:24227000-24228000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr3:24227000-24228000	Enhancers	Placenta Amnion	Placenta Amnion
14	chr3:24227000-24228200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:24227200-24227800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:24227200-24227800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr3:24227200-24227800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr3:24227200-24227800	Enhancers	Brain Cingulate Gyrus	brain
19	chr3:24227200-24227800	Enhancers	Fetal Heart	heart
20	chr3:24227200-24227800	Enhancers	Placenta	Placenta
21	chr3:24227200-24227800	Enhancers	Pancreas	Pancrea
22	chr3:24227200-24227800	Enhancers	Right Ventricle	heart
23	chr3:24227200-24227800	Enhancers	NHEK	skin
24	chr3:24227200-24227800	Enhancers	NHLF	lung
25	chr3:24227200-24228000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr3:24227200-24228000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr3:24227200-24228000	Enhancers	Right Atrium	heart
28	chr3:24227200-24228200	Enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr3:24227400-24227800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr3:24227400-24227800	Enhancers	Brain Anterior Caudate	brain
31	chr3:24227400-24227800	Enhancers	Brain Germinal Matrix	brain
32	chr3:24227400-24227800	Enhancers	Brain Inferior Temporal Lobe	brain
33	chr3:24227400-24227800	Enhancers	Brain Substantia Nigra	brain
34	chr3:24227400-24227800	Enhancers	Ovary	ovary
35	chr3:24227400-24227800	Enhancers	Rectal Smooth Muscle	rectum
36	chr3:24227400-24227800	Enhancers	Stomach Mucosa	stomach
37	chr3:24227400-24227800	Enhancers	Spleen	Spleen
38	chr3:24227400-24227800	Enhancers	HMEC	breast
39	chr3:24227400-24238800	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr3:24227600-24227800	Active TSS	Brain Angular Gyrus	brain
41	chr3:24227600-24227800	Enhancers	Brain Hippocampus Middle	brain
42	chr3:24227600-24227800	Flanking Active TSS	K562	blood
43	chr3:24227600-24228800	Weak transcription	Colon Smooth Muscle	Colon
44	chr3:24227600-24231600	Weak transcription	Fetal Intestine Small	intestine
45	chr3:24227600-24231600	Weak transcription	Stomach Smooth Muscle	stomach
46	chr3:24227600-24233600	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links