Variant report

Variant	rs11940576
Chromosome Location	chr4:106545623-106545624
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	chr4:106538370..106540936-chr4:106544522..106547298,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11931966	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11933060	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11933130	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11936257	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11936307	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11936813	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11944125	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11945534	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11946460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58559365	1.00[AMR][1000 genomes]
rs61082957	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837037	1.00[AMR][1000 genomes]
rs73837044	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837048	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837064	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837065	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837067	1.00[AMR][1000 genomes]
rs73837070	1.00[AMR][1000 genomes]
rs73837073	1.00[AMR][1000 genomes]
rs73837075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837078	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837083	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837087	0.85[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106516000-106553000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:106525400-106558600	Weak transcription	Fetal Intestine Large	intestine
3	chr4:106527200-106559000	Weak transcription	Fetal Intestine Small	intestine
4	chr4:106540600-106553800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr4:106541200-106545800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr4:106542400-106546600	Enhancers	Osteobl	bone
7	chr4:106542600-106551800	Weak transcription	HMEC	breast
8	chr4:106543200-106547000	Enhancers	Fetal Muscle Leg	muscle
9	chr4:106543400-106546800	Enhancers	Fetal Heart	heart
10	chr4:106544200-106545800	Enhancers	Muscle Satellite Cultured Cells	--
11	chr4:106544200-106545800	Enhancers	Gastric	stomach
12	chr4:106544200-106546200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr4:106544200-106546200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr4:106544200-106546200	Enhancers	NH-A	brain
15	chr4:106544200-106546800	Enhancers	HSMM	muscle
16	chr4:106544400-106545800	Enhancers	Left Ventricle	heart
17	chr4:106544400-106546000	Enhancers	Brain Substantia Nigra	brain
18	chr4:106544600-106546200	Enhancers	Stomach Mucosa	stomach
19	chr4:106544800-106545800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr4:106544800-106546800	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr4:106545000-106546000	Enhancers	Brain Anterior Caudate	brain
22	chr4:106545000-106546200	Enhancers	Small Intestine	intestine
23	chr4:106545000-106546600	Enhancers	NHDF-Ad	bronchial
24	chr4:106545000-106546800	Enhancers	Fetal Muscle Trunk	muscle
25	chr4:106545200-106545800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr4:106545200-106546000	Weak transcription	Brain Hippocampus Middle	brain
27	chr4:106545200-106546200	Enhancers	Brain Cingulate Gyrus	brain
28	chr4:106545200-106546600	Weak transcription	Psoas Muscle	Psoas
29	chr4:106545200-106577800	Weak transcription	Pancreas	Pancrea
30	chr4:106545400-106546000	Enhancers	Liver	Liver
31	chr4:106545400-106546200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr4:106545400-106546200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr4:106545600-106545800	Flanking Active TSS	Duodenum Mucosa	Duodenum
34	chr4:106545600-106546000	Enhancers	Primary monocytes fromperipheralblood	blood
35	chr4:106545600-106546000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr4:106545600-106546000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr4:106545600-106546000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr4:106545600-106546000	Enhancers	Adipose Nuclei	Adipose
39	chr4:106545600-106546000	Enhancers	Fetal Lung	lung
40	chr4:106545600-106546000	Enhancers	Rectal Mucosa Donor 31	rectum
41	chr4:106545600-106546000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
42	chr4:106545600-106546000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
43	chr4:106545600-106546000	Flanking Active TSS	HSMMtube	muscle
44	chr4:106545600-106546200	Enhancers	Primary hematopoietic stem cells short term culture	blood
45	chr4:106545600-106546200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr4:106545600-106546200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr4:106545600-106546200	Enhancers	Lung	lung
48	chr4:106545600-106546200	Enhancers	Ovary	ovary
49	chr4:106545600-106546200	Flanking Active TSS	GM12878-XiMat	blood
50	chr4:106545600-106546200	Enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links