Variant report

Variant	rs36060079
Chromosome Location	chr3:23305620-23305621
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs12106681	0.88[EUR][1000 genomes]
rs13060112	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13060251	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13063185	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13067514	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13073761	0.83[AMR][1000 genomes]
rs13076527	0.89[AMR][1000 genomes]
rs13078970	0.88[EUR][1000 genomes]
rs13084250	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13085266	0.89[AMR][1000 genomes]
rs13087238	0.83[AMR][1000 genomes]
rs13087563	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13090633	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13092830	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13099586	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13100605	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34443476	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34474308	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34504120	0.82[EUR][1000 genomes]
rs34513914	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34584255	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34619482	0.83[AMR][1000 genomes]
rs34732257	0.89[AMR][1000 genomes]
rs34743949	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35096750	0.88[EUR][1000 genomes]
rs35190363	0.89[AMR][1000 genomes]
rs35230557	0.94[AMR][1000 genomes]
rs35240920	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35266274	0.87[EUR][1000 genomes]
rs35346188	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35402533	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35587590	0.88[EUR][1000 genomes]
rs35657558	0.83[AMR][1000 genomes]
rs35776486	0.88[EUR][1000 genomes]
rs35869522	0.85[EUR][1000 genomes]
rs35892300	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35902312	0.83[AMR][1000 genomes]
rs35928592	0.94[AMR][1000 genomes]
rs36123979	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71317817	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71317819	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71317820	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71317821	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71317822	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71317823	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71317824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71317827	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71317829	0.88[EUR][1000 genomes]
rs71317834	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs71322171	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs71322172	0.83[AMR][1000 genomes]
rs71322173	0.83[AMR][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	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

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23292800-23306800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:23295200-23321800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr3:23297000-23307000	Weak transcription	Primary B cells from cord blood	blood
4	chr3:23298800-23311000	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr3:23298800-23336600	Weak transcription	Thymus	Thymus
6	chr3:23299000-23306800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr3:23299000-23314200	Weak transcription	Primary T cells from cord blood	blood
8	chr3:23302400-23305800	Weak transcription	Psoas Muscle	Psoas
9	chr3:23302400-23312800	Weak transcription	Lung	lung
10	chr3:23302400-23321000	Weak transcription	Pancreas	Pancrea
11	chr3:23303800-23306800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr3:23303800-23307200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr3:23304200-23306200	Enhancers	HUVEC	blood vessel
14	chr3:23304200-23306600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:23304200-23307200	Enhancers	Osteobl	bone
16	chr3:23304400-23306800	Enhancers	NHEK	skin
17	chr3:23304400-23307000	Enhancers	HMEC	breast
18	chr3:23304400-23307200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:23304400-23307200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr3:23304400-23307200	Enhancers	NHDF-Ad	bronchial
21	chr3:23304800-23310800	Weak transcription	Fetal Lung	lung
22	chr3:23305200-23307200	Enhancers	HSMM	muscle
23	chr3:23305200-23311000	Weak transcription	Brain Hippocampus Middle	brain
24	chr3:23305400-23307000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr3:23305600-23305800	Flanking Active TSS	NH-A	brain
26	chr3:23305600-23306000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
27	chr3:23305600-23307000	Enhancers	NHLF	lung
28	chr3:23305600-23307200	Enhancers	HSMMtube	muscle
29	chr3:23305600-23318400	Weak transcription	Brain Substantia Nigra	brain

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