Variant report

Variant	rs1876406
Chromosome Location	chr1:215649591-215649592
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:215649219..215651138-chr1:215654320..215656307,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10864179	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11120592	0.88[EUR][1000 genomes]
rs1124524	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11803705	0.94[CEU][hapmap];0.80[EUR][1000 genomes]
rs17024879	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2275768	0.80[EUR][1000 genomes]
rs2797389	0.95[CEU][hapmap];0.86[EUR][1000 genomes]
rs3767255	0.95[CEU][hapmap];0.80[EUR][1000 genomes]
rs4655284	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs60572271	0.86[EUR][1000 genomes]
rs61830020	0.82[AMR][1000 genomes]
rs61830033	0.88[EUR][1000 genomes]
rs6702970	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832537	chr1:215509026-215705105	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	esv1796390	chr1:215561548-215799074	Weak transcription Bivalent/Poised TSS Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1014266	chr1:215573051-215730838	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv947159	chr1:215645387-215673199	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv430324	chr1:215649163-216082605	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:215646800-215650000	Enhancers	Placenta Amnion	Placenta Amnion
2	chr1:215647000-215650400	Enhancers	HSMM	muscle
3	chr1:215647200-215650000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr1:215647600-215649800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:215647600-215650200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr1:215647800-215651000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr1:215648200-215650000	Enhancers	NHLF	lung
8	chr1:215648200-215650200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr1:215648400-215650000	Enhancers	NH-A	brain
10	chr1:215648400-215650200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr1:215648400-215650400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr1:215648400-215650400	Enhancers	HMEC	breast
13	chr1:215648400-215650400	Enhancers	NHEK	skin
14	chr1:215648400-215650600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr1:215648600-215650000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr1:215648800-215650600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr1:215648800-215663200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr1:215649000-215649800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
19	chr1:215649200-215651200	Enhancers	HSMMtube	muscle
20	chr1:215649400-215649600	Flanking Active TSS	Osteobl	bone
21	chr1:215649400-215650000	Flanking Active TSS	NHDF-Ad	bronchial

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