Variant report

Variant	rs60407944
Chromosome Location	chr3:23356418-23356419
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10451986	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11129112	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11129114	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11916447	0.93[ASN][1000 genomes]
rs11921580	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11928344	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12185989	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12630883	0.91[ASN][1000 genomes]
rs12632777	0.87[ASN][1000 genomes]
rs12633613	0.91[ASN][1000 genomes]
rs12634459	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12636682	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1495135	0.87[ASN][1000 genomes]
rs17341838	0.89[ASN][1000 genomes]
rs17343818	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17403650	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1826847	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1908772	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2172827	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2359637	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2359638	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28370926	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2884787	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4368441	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4553929	0.80[AMR][1000 genomes]
rs55895449	0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs55934161	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs57055494	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57234542	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs57575542	0.92[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs57624654	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57869672	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6550761	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6762615	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6763074	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6764047	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6765562	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6766166	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6771053	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6771206	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6773311	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6776770	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6778478	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6792462	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6797467	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6807390	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73033545	0.89[ASN][1000 genomes]
rs73033551	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7428484	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7610971	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7611132	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7613733	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7613969	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7614926	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7617659	0.83[ASN][1000 genomes]
rs7622913	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7632520	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7635784	0.91[ASN][1000 genomes]
rs7636536	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7638278	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7638405	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7641764	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7646505	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7649682	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7651175	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs903518	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9814419	0.91[ASN][1000 genomes]
rs9820931	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9825835	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9835256	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9839409	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9841308	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9841518	0.90[ASN][1000 genomes]
rs9844723	0.92[ASN][1000 genomes]
rs9845536	0.89[ASN][1000 genomes]
rs9881808	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9882514	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]

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:32 , 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	chr3:23344600-23356600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr3:23345800-23358600	Weak transcription	Fetal Stomach	stomach
4	chr3:23347000-23357200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr3:23348200-23356600	Weak transcription	Brain Hippocampus Middle	brain
6	chr3:23349200-23357800	Weak transcription	Lung	lung
7	chr3:23350600-23366400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr3:23350800-23356600	Weak transcription	Psoas Muscle	Psoas
9	chr3:23350800-23362600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:23351000-23362400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:23353400-23358400	Enhancers	HSMMtube	muscle
12	chr3:23353600-23357800	Enhancers	HSMM	muscle
13	chr3:23353800-23362800	Weak transcription	Left Ventricle	heart
14	chr3:23354000-23357600	Enhancers	Muscle Satellite Cultured Cells	--
15	chr3:23354200-23357000	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr3:23354800-23356800	Weak transcription	Brain Substantia Nigra	brain
17	chr3:23354800-23357200	Weak transcription	Brain Cingulate Gyrus	brain
18	chr3:23355200-23365400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr3:23355400-23356600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr3:23355600-23357400	Enhancers	Thymus	Thymus
21	chr3:23355800-23358400	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr3:23355800-23362800	Weak transcription	Esophagus	oesophagus
23	chr3:23355800-23366000	Weak transcription	Ovary	ovary
24	chr3:23356000-23357400	Weak transcription	Right Atrium	heart
25	chr3:23356200-23357200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr3:23356200-23357400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:23356400-23356800	Enhancers	Primary T cells from cord blood	blood
28	chr3:23356400-23356800	Enhancers	NHDF-Ad	bronchial
29	chr3:23356400-23357000	Enhancers	Brain Angular Gyrus	brain
30	chr3:23356400-23357400	Enhancers	Osteobl	bone
31	chr3:23356400-23358400	Enhancers	Adipose Nuclei	Adipose
32	chr3:23356400-23358800	Enhancers	Skeletal Muscle Male	skeletal muscle

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