Variant report

Variant	rs62275825
Chromosome Location	chr3:100758710-100758711
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10511181	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10511182	0.82[AMR][1000 genomes]
rs13059867	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13060137	0.84[AMR][1000 genomes]
rs13060166	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13060849	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs13065684	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs13072788	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13074729	0.94[AMR][1000 genomes]
rs13080859	0.85[EUR][1000 genomes]
rs13081830	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs13085636	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs13086519	1.00[AFR][1000 genomes]
rs13088524	0.86[EUR][1000 genomes]
rs13091757	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13100301	0.84[AMR][1000 genomes]
rs16843198	0.82[AMR][1000 genomes]
rs17284842	0.84[AMR][1000 genomes]
rs17398421	0.86[EUR][1000 genomes]
rs17398684	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17399603	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1839298	1.00[AFR][1000 genomes]
rs2576382	0.81[EUR][1000 genomes]
rs2576391	0.84[EUR][1000 genomes]
rs2595893	0.84[EUR][1000 genomes]
rs2595894	0.84[EUR][1000 genomes]
rs2713764	0.81[EUR][1000 genomes]
rs2713786	0.84[EUR][1000 genomes]
rs34275644	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs34281790	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs34315591	0.81[AMR][1000 genomes]
rs34515751	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs34565718	0.84[AMR][1000 genomes]
rs34645172	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34719725	0.86[EUR][1000 genomes]
rs34897295	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35252712	1.00[AFR][1000 genomes]
rs35333915	0.82[AMR][1000 genomes]
rs35337386	1.00[AFR][1000 genomes]
rs35509049	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35517882	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35530876	0.86[EUR][1000 genomes]
rs35573711	1.00[AFR][1000 genomes]
rs35617051	0.81[EUR][1000 genomes]
rs35630894	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35850913	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs35974360	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36082674	1.00[AFR][1000 genomes]
rs36156426	0.84[AMR][1000 genomes]
rs36194526	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs41386544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62273927	0.84[AMR][1000 genomes]
rs62273928	0.84[AMR][1000 genomes]
rs62273930	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62273935	0.86[EUR][1000 genomes]
rs62274066	1.00[AFR][1000 genomes]
rs62274067	1.00[AFR][1000 genomes]
rs62275197	0.86[EUR][1000 genomes]
rs62275198	0.86[EUR][1000 genomes]
rs62275199	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62275200	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62275203	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62275204	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62275770	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62275773	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62275774	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62275826	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs66598219	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs66852780	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs67946790	0.86[EUR][1000 genomes]
rs73143088	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931417	chr3:100547347-101183844	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv2757881	chr3:100613387-100776497	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv2759163	chr3:100613387-100776497	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv877222	chr3:100715576-101038297	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 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	chr3:100754400-100758800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:100755600-100762800	Enhancers	NHDF-Ad	bronchial
3	chr3:100756000-100759400	Weak transcription	Aorta	Aorta
4	chr3:100757200-100758800	Enhancers	HSMMtube	muscle
5	chr3:100757200-100758800	Enhancers	Osteobl	bone
6	chr3:100757400-100759600	Enhancers	Adipose Nuclei	Adipose
7	chr3:100757600-100758800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr3:100757600-100759400	Enhancers	Fetal Muscle Leg	muscle
9	chr3:100758000-100759400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr3:100758200-100759200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr3:100758200-100759200	Weak transcription	Right Atrium	heart
12	chr3:100758200-100763200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:100758400-100759400	Weak transcription	Psoas Muscle	Psoas
14	chr3:100758400-100760200	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr3:100758400-100761000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:100758400-100761000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:100758400-100761000	Weak transcription	HMEC	breast
18	chr3:100758400-100761600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:100758400-100761800	Weak transcription	NHLF	lung
20	chr3:100758600-100759000	Weak transcription	HSMM	muscle
21	chr3:100758600-100760000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:100758600-100761000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr3:100758600-100761000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr3:100758600-100761000	Weak transcription	NHEK	skin

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