Variant report

Variant	rs7648425
Chromosome Location	chr3:23346407-23346408
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 116 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:110)

rs_ID	r²[population]
rs1027380	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11707450	0.80[CEU][hapmap];1.00[YRI][hapmap]
rs11711630	0.88[ASN][1000 genomes]
rs11715035	0.84[CEU][hapmap];1.00[YRI][hapmap]
rs11715107	0.87[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.88[ASN][1000 genomes]
rs13087416	0.88[ASN][1000 genomes]
rs13095887	0.87[ASN][1000 genomes]
rs13323077	0.95[CEU][hapmap]
rs1390083	0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1495133	0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.97[ASN][1000 genomes]
rs1495134	0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.81[ASN][1000 genomes]
rs1552931	0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1692619	0.84[CEU][hapmap];1.00[YRI][hapmap]
rs1692621	0.92[YRI][hapmap]
rs1692647	0.95[CEU][hapmap]
rs1695180	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs1695192	0.95[CEU][hapmap]
rs1695203	0.95[CEU][hapmap]
rs17013268	0.91[YRI][hapmap]
rs17342342	0.89[ASN][1000 genomes]
rs17402378	0.89[CEU][hapmap];1.00[YRI][hapmap]
rs1874234	0.84[CEU][hapmap];1.00[YRI][hapmap]
rs1874502	0.84[CEU][hapmap];1.00[YRI][hapmap]
rs1874503	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs1994953	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1995175	0.95[CEU][hapmap];0.84[JPT][hapmap]
rs2036044	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs2036045	0.85[YRI][hapmap]
rs2047340	0.93[CHB][hapmap];0.81[ASN][1000 genomes]
rs2055155	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2055156	1.00[YRI][hapmap]
rs2055307	1.00[YRI][hapmap]
rs2088129	0.97[ASN][1000 genomes]
rs2101811	0.85[CEU][hapmap];1.00[YRI][hapmap];0.80[EUR][1000 genomes]
rs2132144	0.90[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2132145	0.87[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.83[ASN][1000 genomes]
rs2132147	0.93[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2132148	0.85[YRI][hapmap]
rs2132149	0.87[YRI][hapmap];0.87[ASN][1000 genomes]
rs2173057	0.84[CEU][hapmap]
rs2201481	0.82[ASN][1000 genomes]
rs2201484	0.80[CEU][hapmap];1.00[YRI][hapmap]
rs2359754	0.84[EUR][1000 genomes]
rs2359755	0.88[YRI][hapmap]
rs2359760	0.82[ASN][1000 genomes]
rs2359761	0.84[CEU][hapmap];1.00[YRI][hapmap]
rs36073188	0.87[ASN][1000 genomes]
rs4293660	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4334589	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4858063	1.00[YRI][hapmap]
rs4858065	0.89[ASN][1000 genomes]
rs4858066	0.88[ASN][1000 genomes]
rs4858070	0.83[CEU][hapmap];1.00[YRI][hapmap]
rs4858488	0.96[ASN][1000 genomes]
rs4858489	0.83[EUR][1000 genomes]
rs4858490	1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs4858495	0.84[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs4858498	0.97[ASN][1000 genomes]
rs4858499	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4858507	0.84[CEU][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs5023615	0.84[CEU][hapmap];1.00[YRI][hapmap];0.85[EUR][1000 genomes]
rs6550754	0.95[CEU][hapmap];0.81[YRI][hapmap];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6550758	0.89[EUR][1000 genomes]
rs6550760	0.81[CEU][hapmap];1.00[YRI][hapmap]
rs6769959	0.93[ASN][1000 genomes]
rs6780388	0.85[CEU][hapmap]
rs6790185	1.00[CHB][hapmap];0.85[JPT][hapmap];0.97[ASN][1000 genomes]
rs6790327	0.85[CEU][hapmap];1.00[YRI][hapmap];0.85[EUR][1000 genomes]
rs6799861	0.80[ASN][1000 genomes]
rs6801824	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs6806387	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs73149661	0.89[ASN][1000 genomes]
rs7618910	0.97[ASN][1000 genomes]
rs7621680	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7629327	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7635882	0.97[ASN][1000 genomes]
rs7636532	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7643705	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs7646541	0.95[CEU][hapmap]
rs7653868	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs778463	0.84[CEU][hapmap];1.00[YRI][hapmap]
rs778465	0.83[YRI][hapmap]
rs778492	0.84[CEU][hapmap]
rs778493	0.93[CHB][hapmap];0.89[JPT][hapmap]
rs778497	0.84[CEU][hapmap];1.00[YRI][hapmap]
rs778502	0.85[CEU][hapmap]
rs778511	0.83[YRI][hapmap]
rs778515	0.95[CEU][hapmap];0.83[JPT][hapmap]
rs778520	0.95[CEU][hapmap];0.84[JPT][hapmap]
rs778524	0.95[CEU][hapmap]
rs801277	0.95[CEU][hapmap]
rs903519	0.88[ASN][1000 genomes]
rs931609	0.84[CEU][hapmap];1.00[YRI][hapmap]
rs9631541	0.95[CEU][hapmap]
rs9757330	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs9758590	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs9815299	0.84[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9823684	0.82[EUR][1000 genomes]
rs9826103	0.97[ASN][1000 genomes]
rs9836135	0.85[YRI][hapmap]
rs9840015	0.97[ASN][1000 genomes]
rs9840808	0.94[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9841336	0.85[EUR][1000 genomes]
rs9844558	1.00[CHB][hapmap];0.84[JPT][hapmap];0.97[ASN][1000 genomes]
rs9848331	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9848389	0.85[CEU][hapmap];1.00[YRI][hapmap];0.85[EUR][1000 genomes]
rs9849679	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9862734	0.95[CEU][hapmap]
rs9863465	0.85[EUR][1000 genomes]
rs9875910	0.84[CEU][hapmap];1.00[YRI][hapmap];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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
6	nsv967177	chr3:23337450-23350050	Weak transcription Enhancers Active TSS	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	chr3:23343000-23347200	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:23343200-23350200	Weak transcription	Psoas Muscle	Psoas
4	chr3:23343400-23346600	Weak transcription	Ovary	ovary
5	chr3:23343600-23347800	Enhancers	HSMMtube	muscle
6	chr3:23343800-23355200	Weak transcription	Aorta	Aorta
7	chr3:23344400-23346800	Enhancers	Fetal Lung	lung
8	chr3:23344600-23353400	Weak transcription	Left Ventricle	heart
9	chr3:23344600-23356600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:23345000-23350200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:23345200-23346800	Enhancers	HSMM	muscle
12	chr3:23345200-23348000	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr3:23345400-23346800	Enhancers	NHLF	lung
14	chr3:23345400-23347000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:23345600-23346800	Enhancers	Muscle Satellite Cultured Cells	--
16	chr3:23345600-23347200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr3:23345600-23354000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr3:23345800-23346600	Weak transcription	Fetal Kidney	kidney
19	chr3:23345800-23346600	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr3:23345800-23346800	Weak transcription	Colon Smooth Muscle	Colon
21	chr3:23345800-23356400	Weak transcription	NHDF-Ad	bronchial
22	chr3:23345800-23358600	Weak transcription	Fetal Stomach	stomach
23	chr3:23346200-23347000	Enhancers	Duodenum Smooth Muscle	Duodenum
24	chr3:23346200-23347800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr3:23346400-23347000	Enhancers	Adipose Nuclei	Adipose
26	chr3:23346400-23347000	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr3:23346400-23354400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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