Variant report

Variant	rs2202677
Chromosome Location	chr1:215648967-215648968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:215646817..215649143-chr1:215661987..215663671,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1319603	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1507298	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1819739	0.96[CEU][hapmap];0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1911546	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2089427	1.00[AFR][1000 genomes]
rs2677112	0.88[CEU][hapmap]
rs2797224	0.92[CEU][hapmap]
rs2797386	0.89[CEU][hapmap]
rs7539365	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs756174	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][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	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

No data

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

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

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links