Variant report

Variant	rs56077494
Chromosome Location	chr3:100754195-100754196
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs13085823	0.89[ASN][1000 genomes]
rs1375512	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1449299	0.81[ASN][1000 genomes]
rs1530731	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1579969	0.89[ASN][1000 genomes]
rs16843153	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16843185	0.89[ASN][1000 genomes]
rs17339226	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs17340282	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2713749	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2713758	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55687619	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs56237429	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs59476872	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6774218	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6787197	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6787878	0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73141447	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73143061	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73143062	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73143064	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73143072	0.81[ASN][1000 genomes]
rs73144908	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73144910	0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73144915	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73144970	0.89[ASN][1000 genomes]
rs73149160	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73149173	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7621518	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7623956	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7625454	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7641631	0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7643050	0.82[AMR][1000 genomes]
rs959713	0.83[AMR][1000 genomes];0.83[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:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100750800-100754200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr3:100751000-100754200	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr3:100751000-100754400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr3:100752600-100754400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:100753400-100754400	Weak transcription	HSMMtube	muscle
6	chr3:100753800-100754800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:100754000-100756000	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr3:100754000-100756600	Enhancers	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links