Variant report

Variant	rs41276451
Chromosome Location	chr3:53810284-53810285
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:53809127..53812085-chr3:53878579..53880876,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000016391	Chromatin interaction
ENSG00000056736	Chromatin interaction

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

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

rs_ID	r²[population]
rs59904672	1.00[EUR][1000 genomes]
rs9846156	1.00[EUR][1000 genomes]

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	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS 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	31 gene(s)	inside rSNPs	diseases
2	nsv1001128	chr3:53659570-53927842	Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1013783	chr3:53694418-53934781	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53785000-53811200	Weak transcription	Spleen	Spleen
2	chr3:53789800-53814600	Weak transcription	Brain Substantia Nigra	brain
3	chr3:53802400-53818200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr3:53806200-53811800	Enhancers	NHDF-Ad	bronchial
5	chr3:53806800-53813000	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr3:53807400-53819200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr3:53807600-53810400	Weak transcription	NH-A	brain
8	chr3:53807600-53814800	Weak transcription	Right Atrium	heart
9	chr3:53807600-53829800	Weak transcription	Brain Angular Gyrus	brain
10	chr3:53808000-53815800	Strong transcription	Fetal Lung	lung
11	chr3:53808200-53810600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr3:53808200-53814800	Weak transcription	Brain Anterior Caudate	brain
13	chr3:53808200-53817600	Weak transcription	Colon Smooth Muscle	Colon
14	chr3:53808200-53818400	Weak transcription	Duodenum Mucosa	Duodenum
15	chr3:53808200-53827800	Strong transcription	Fetal Intestine Small	intestine
16	chr3:53808400-53810400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr3:53808400-53814800	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr3:53808600-53810800	Weak transcription	Fetal Thymus	thymus
19	chr3:53808800-53830200	Weak transcription	Pancreas	Pancrea
20	chr3:53809400-53811400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr3:53809400-53824400	Strong transcription	Fetal Intestine Large	intestine
22	chr3:53809600-53810400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr3:53809600-53811600	Enhancers	Liver	Liver
24	chr3:53809800-53810400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr3:53809800-53810800	Enhancers	NHLF	lung
26	chr3:53809800-53811000	Enhancers	HSMM	muscle
27	chr3:53809800-53811400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:53809800-53811400	Enhancers	Aorta	Aorta
29	chr3:53809800-53811600	Enhancers	HMEC	breast
30	chr3:53809800-53811800	Enhancers	Lung	lung
31	chr3:53810000-53810400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr3:53810000-53810400	Flanking Active TSS	Osteobl	bone
33	chr3:53810000-53810600	Enhancers	HSMMtube	muscle
34	chr3:53810000-53811000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr3:53810000-53811000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr3:53810000-53811000	Enhancers	Fetal Kidney	kidney
37	chr3:53810000-53811200	Enhancers	Fetal Muscle Leg	muscle
38	chr3:53810000-53811400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr3:53810000-53811400	Enhancers	Ovary	ovary
40	chr3:53810200-53811200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr3:53810200-53811200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr3:53810200-53811600	Enhancers	Pancreatic Islets	Pancreatic Islet
43	chr3:53810200-53811600	Enhancers	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links