Variant report

Variant	rs6550216
Chromosome Location	chr3:19939772-19939773
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11924875	1.00[EUR][1000 genomes]
rs11929340	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs13340108	1.00[EUR][1000 genomes]
rs1605195	1.00[EUR][1000 genomes]
rs17006349	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2001650	1.00[EUR][1000 genomes]
rs28886381	1.00[EUR][1000 genomes]
rs55746682	1.00[EUR][1000 genomes]
rs55851373	1.00[EUR][1000 genomes]
rs58512353	1.00[EUR][1000 genomes]
rs58603530	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61068672	1.00[EUR][1000 genomes]
rs61139478	1.00[EUR][1000 genomes]
rs61152961	1.00[EUR][1000 genomes]
rs6550130	1.00[EUR][1000 genomes]
rs6550210	1.00[EUR][1000 genomes]
rs6550212	1.00[EUR][1000 genomes]
rs6791245	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6805780	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73173912	1.00[EUR][1000 genomes]
rs73176006	1.00[EUR][1000 genomes]
rs73176093	1.00[EUR][1000 genomes]
rs73184830	1.00[EUR][1000 genomes]
rs73184831	1.00[EUR][1000 genomes]
rs73184832	1.00[EUR][1000 genomes]
rs73184839	1.00[EUR][1000 genomes]
rs73184842	1.00[EUR][1000 genomes]
rs73190456	1.00[EUR][1000 genomes]
rs73190462	1.00[EUR][1000 genomes]
rs7355793	1.00[EUR][1000 genomes]
rs7624970	1.00[EUR][1000 genomes]
rs7629079	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7651609	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9834480	1.00[EUR][1000 genomes]
rs9840739	1.00[EUR][1000 genomes]
rs9847647	1.00[EUR][1000 genomes]
rs9850421	1.00[EUR][1000 genomes]
rs9854666	1.00[EUR][1000 genomes]
rs9855399	1.00[EUR][1000 genomes]
rs9861798	1.00[EUR][1000 genomes]
rs9881822	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010123	chr3:18990307-19989504	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv433358	chr3:19547184-19996508	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	esv1828161	chr3:19547184-20062060	Flanking Active TSS Genic enhancers Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription 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	17 gene(s)	inside rSNPs	diseases
4	esv1825914	chr3:19549859-20137270	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	esv1833006	chr3:19562271-20389045	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
6	esv1826570	chr3:19579860-20077414	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
7	esv1833139	chr3:19579860-20121349	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats 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	17 gene(s)	inside rSNPs	diseases
8	esv1826254	chr3:19592688-20042834	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
9	nsv1003183	chr3:19671647-19948351	Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:19927400-19941200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:19931800-19940000	Weak transcription	Osteobl	bone
3	chr3:19931800-19940200	Weak transcription	HUVEC	blood vessel
4	chr3:19931800-19943400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr3:19938800-19940800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:19939000-19940400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr3:19939000-19941600	Enhancers	Liver	Liver
8	chr3:19939200-19940200	Enhancers	A549	lung
9	chr3:19939400-19940000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr3:19939600-19940000	Enhancers	Muscle Satellite Cultured Cells	--
11	chr3:19939600-19940600	Enhancers	HSMMtube	muscle
12	chr3:19939600-19940800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links