Variant report

Variant	rs35499232
Chromosome Location	chr3:98691365-98691366
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 102 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10428160	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10589669	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11552978	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12107272	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12108018	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12108142	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13059624	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13065136	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13068317	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13072410	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13074614	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13074787	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13076960	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13078549	0.91[EUR][1000 genomes]
rs13079960	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13080057	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13081992	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13083238	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13083613	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13083934	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13084692	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13087627	0.95[EUR][1000 genomes]
rs13087631	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13088532	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13091170	0.95[EUR][1000 genomes]
rs13091236	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13091956	0.84[EUR][1000 genomes]
rs13093128	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13096085	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13097876	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13100915	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13100937	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1983009	0.82[EUR][1000 genomes]
rs2439232	0.89[EUR][1000 genomes]
rs2454687	0.91[EUR][1000 genomes]
rs34008360	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34269725	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34279227	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34284740	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34394867	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34428696	0.93[EUR][1000 genomes]
rs34470469	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34479374	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34489202	0.95[EUR][1000 genomes]
rs34688367	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34711372	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34725039	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34826460	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34848749	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34860591	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35006699	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35025156	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35076733	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs35098355	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35103318	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35219252	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35234681	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35239055	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35312318	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35366262	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35422064	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35514544	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35526367	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35539438	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35592768	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35764973	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35854439	0.84[EUR][1000 genomes]
rs35894621	0.82[EUR][1000 genomes]
rs35914268	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35947493	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35947806	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs36032715	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs36098932	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36157152	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36160001	0.86[EUR][1000 genomes]
rs36175276	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs41267851	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs55644421	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56083233	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56094988	0.91[AMR][1000 genomes]
rs56246599	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56408882	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6764579	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6805362	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71124004	0.81[EUR][1000 genomes]
rs71311393	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs71311394	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs71311397	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs71311398	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71311402	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71313504	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71313506	0.92[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs71313508	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71313509	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71313510	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71313511	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7614053	1.00[AMR][1000 genomes];0.98[EUR][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	nsv591065	chr3:98204198-98766326	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1007140	chr3:98421229-99202458	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv536663	chr3:98421229-99202458	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer 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	nsv877214	chr3:98445324-98738006	Enhancers Genic enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv1007486	chr3:98597738-99249081	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98686400-98692000	Enhancers	NHEK	skin
2	chr3:98687000-98692000	Enhancers	NHDF-Ad	bronchial
3	chr3:98688600-98692000	Enhancers	HMEC	breast
4	chr3:98689800-98691800	Enhancers	NHLF	lung
5	chr3:98690000-98691800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr3:98690200-98691400	Enhancers	HSMM	muscle
7	chr3:98690200-98691800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:98690200-98692000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr3:98690400-98691400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr3:98690600-98691400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr3:98690600-98691600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr3:98690600-98692000	Enhancers	Osteobl	bone
13	chr3:98690800-98692200	Enhancers	HUVEC	blood vessel
14	chr3:98690800-98692800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:98691000-98691400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:98691000-98691400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr3:98691000-98691400	Active TSS	A549	lung
18	chr3:98691000-98692000	Enhancers	Muscle Satellite Cultured Cells	--
19	chr3:98691000-98692000	Enhancers	NH-A	brain
20	chr3:98691000-98693600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr3:98691000-98696200	Weak transcription	Hela-S3	cervix
22	chr3:98691200-98691400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr3:98691200-98691400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr3:98691200-98691800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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