Variant report

Variant	rs9882650
Chromosome Location	chr3:54792684-54792685
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10865990	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs11130432	0.82[CEU][hapmap];0.99[ASN][1000 genomes]
rs11718583	1.00[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs17054369	1.00[CHB][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs1820616	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1882315	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1882321	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs1965072	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs1997463	1.00[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs488451	0.84[AMR][1000 genomes]
rs492885	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs4955890	1.00[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs510605	0.82[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs525736	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs529098	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs530868	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs533524	0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.83[AMR][1000 genomes]
rs535526	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs541957	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs543828	0.82[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs550728	0.82[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.83[YRI][hapmap]
rs562668	0.82[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs566448	0.87[CHB][hapmap]
rs566884	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs568051	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs588784	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs599573	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs601383	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs601420	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs608142	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs622326	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs630987	1.00[CEU][hapmap]
rs634393	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs647480	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs652364	0.82[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs666071	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs7633762	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs838017	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes]
rs9836012	0.90[AFR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014595	chr3:53944473-54846754	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv834700	chr3:54637374-54803896	Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:54784600-54797200	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr3:54785200-54793800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:54785800-54798200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr3:54787400-54792800	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr3:54787400-54800200	Weak transcription	Stomach Smooth Muscle	stomach
6	chr3:54787600-54804600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:54789400-54793800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr3:54790000-54794400	Enhancers	Fetal Stomach	stomach
9	chr3:54790600-54794600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:54790800-54793600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr3:54790800-54794200	Weak transcription	Fetal Muscle Leg	muscle
12	chr3:54791400-54794000	Weak transcription	NH-A	brain
13	chr3:54791400-54794000	Weak transcription	NHDF-Ad	bronchial
14	chr3:54791800-54794200	Weak transcription	NHLF	lung
15	chr3:54792600-54792800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:54792600-54792800	Enhancers	Rectal Smooth Muscle	rectum
17	chr3:54792600-54793200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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