Variant report

Variant	rs11925220
Chromosome Location	chr3:133569777-133569778
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:133569732..133572608-chr3:133572920..133575487,2	MCF-7	breast:
2	chr3:133562773..133565495-chr3:133567323..133570271,2	MCF-7	breast:
3	chr3:133565778..133567466-chr3:133568351..133571164,2	K562	blood:

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs1108065	0.85[YRI][hapmap]
rs13093428	0.86[CHD][hapmap]

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	nsv877506	chr3:133423473-133569777	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv933605	chr3:133425907-133680641	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv829729	chr3:133444871-133620387	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133539400-133572200	Weak transcription	Fetal Brain Male	brain
2	chr3:133544600-133573200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr3:133544600-133584200	Weak transcription	Esophagus	oesophagus
4	chr3:133545000-133582800	Weak transcription	Gastric	stomach
5	chr3:133558400-133572400	Weak transcription	Brain Substantia Nigra	brain
6	chr3:133558600-133572200	Weak transcription	Adipose Nuclei	Adipose
7	chr3:133558600-133588000	Weak transcription	Spleen	Spleen
8	chr3:133558800-133572000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr3:133560000-133572200	Weak transcription	Brain Anterior Caudate	brain
10	chr3:133560200-133570000	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:133560400-133587000	Weak transcription	Stomach Smooth Muscle	stomach
12	chr3:133560600-133571800	Weak transcription	Brain Germinal Matrix	brain
13	chr3:133560800-133572200	Weak transcription	Fetal Brain Female	brain
14	chr3:133562400-133572000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr3:133562800-133572800	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr3:133563400-133572200	Weak transcription	Left Ventricle	heart
17	chr3:133564400-133572000	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr3:133564400-133575200	Weak transcription	Aorta	Aorta
19	chr3:133564400-133578600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr3:133564400-133587200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr3:133566800-133572200	Weak transcription	Brain Cingulate Gyrus	brain
22	chr3:133567200-133577600	Enhancers	K562	blood
23	chr3:133568400-133569800	Flanking Active TSS	GM12878-XiMat	blood
24	chr3:133568400-133571600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr3:133568600-133571600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr3:133569000-133572400	Weak transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links