Variant report

Variant	rs2884731
Chromosome Location	chr3:23358146-23358147
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1013460	0.80[YRI][hapmap]
rs11711072	1.00[CHB][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11717397	0.94[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs12330479	0.80[YRI][hapmap]
rs12386394	0.85[ASN][1000 genomes]
rs12715046	0.87[ASN][1000 genomes]
rs12715048	1.00[CHB][hapmap];0.91[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.83[TSI][hapmap];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs13074192	0.89[CEU][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs13087861	1.00[CHB][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1353322	1.00[CHB][hapmap];0.98[CHD][hapmap];0.81[GIH][hapmap];0.82[JPT][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap];0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1532355	0.93[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs1874235	0.85[YRI][hapmap]
rs4241511	0.82[YRI][hapmap]
rs4858062	0.80[YRI][hapmap]
rs4858069	1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.89[LWK][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap];0.80[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4858074	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap];0.87[ASN][1000 genomes]
rs4858483	0.80[GIH][hapmap]
rs4858497	0.88[GIH][hapmap]
rs4858502	0.91[GIH][hapmap]
rs4858504	0.88[YRI][hapmap]
rs4858505	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs60632986	0.81[ASN][1000 genomes]
rs6550748	0.82[GIH][hapmap]
rs6784771	0.80[GIH][hapmap];0.80[YRI][hapmap]
rs6795968	1.00[CHB][hapmap];0.82[JPT][hapmap];0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6804123	0.82[GIH][hapmap]
rs6805889	0.83[YRI][hapmap]
rs716456	1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[YRI][hapmap];0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7374774	0.85[ASN][1000 genomes]
rs7614667	0.85[ASN][1000 genomes]
rs7617072	0.80[GIH][hapmap]
rs7630344	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9310715	0.80[GIH][hapmap];0.80[YRI][hapmap]
rs952134	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.89[LWK][hapmap];0.94[MEX][hapmap];0.85[TSI][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9820922	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9821419	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9836787	0.80[YRI][hapmap]
rs9841123	0.80[YRI][hapmap]
rs9846398	0.82[GIH][hapmap];0.80[YRI][hapmap]
rs9847958	0.84[GIH][hapmap];0.81[LWK][hapmap];0.90[YRI][hapmap]
rs9853489	0.91[GIH][hapmap];0.81[LWK][hapmap];0.90[YRI][hapmap]
rs9854590	0.80[YRI][hapmap]
rs9864908	0.80[YRI][hapmap]

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	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv589948	chr3:23287141-23390221	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1004417	chr3:23318797-23389422	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23337600-23358400	Weak transcription	Primary B cells from peripheral blood	blood
2	chr3:23345800-23358600	Weak transcription	Fetal Stomach	stomach
3	chr3:23350600-23366400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr3:23350800-23362600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr3:23351000-23362400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:23353400-23358400	Enhancers	HSMMtube	muscle
7	chr3:23353800-23362800	Weak transcription	Left Ventricle	heart
8	chr3:23355200-23365400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr3:23355800-23358400	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr3:23355800-23362800	Weak transcription	Esophagus	oesophagus
11	chr3:23355800-23366000	Weak transcription	Ovary	ovary
12	chr3:23356400-23358400	Enhancers	Adipose Nuclei	Adipose
13	chr3:23356400-23358800	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr3:23356800-23361400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr3:23356800-23365400	Weak transcription	Brain Anterior Caudate	brain
16	chr3:23356800-23367600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr3:23357000-23359000	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr3:23357000-23378800	Weak transcription	Brain Angular Gyrus	brain
19	chr3:23357200-23358600	Enhancers	Psoas Muscle	Psoas
20	chr3:23357200-23359000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:23357400-23358400	Weak transcription	Brain Hippocampus Middle	brain
22	chr3:23357400-23358400	Weak transcription	Thymus	Thymus
23	chr3:23357400-23358600	Enhancers	Right Atrium	heart
24	chr3:23357600-23361200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:23357600-23366600	Weak transcription	Brain Substantia Nigra	brain
26	chr3:23357800-23358600	Enhancers	Lung	lung
27	chr3:23357800-23366000	Weak transcription	HSMM	muscle

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