Variant report

Variant	rs73175491
Chromosome Location	chr3:105297267-105297268
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11710857	0.81[EUR][1000 genomes]
rs11713535	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11714275	0.83[EUR][1000 genomes]
rs11715283	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11718457	0.83[EUR][1000 genomes]
rs11719817	0.84[EUR][1000 genomes]
rs2200473	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2399049	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2895300	0.83[EUR][1000 genomes]
rs3772542	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3772544	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3772547	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs481177	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs526297	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57986655	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs598425	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73175407	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73175433	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73175435	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73175442	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73175449	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73175451	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73175463	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73177465	0.85[EUR][1000 genomes]
rs73177489	0.85[EUR][1000 genomes]
rs73179378	0.85[EUR][1000 genomes]
rs73179384	0.81[EUR][1000 genomes]
rs73181374	0.87[EUR][1000 genomes]
rs73181380	0.87[EUR][1000 genomes]
rs73181387	0.83[EUR][1000 genomes]
rs73181397	0.88[EUR][1000 genomes]
rs73183186	0.88[EUR][1000 genomes]
rs73189021	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73189028	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73189034	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73189060	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73192717	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73192730	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73192733	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73192737	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73192751	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73192754	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73192770	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs978436	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv534224	chr3:105141696-105404293	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv829651	chr3:105203424-105402136	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv460811	chr3:105212993-105316769	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
5	nsv591240	chr3:105212993-105316769	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
6	nsv1012669	chr3:105290140-105321201	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats	miRNA target site	n/a	inside rSNPs	n/a

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105221400-105300400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:105260800-105299800	Weak transcription	Pancreas	Pancrea
3	chr3:105268400-105297800	Weak transcription	NHLF	lung
4	chr3:105271600-105303000	Weak transcription	Aorta	Aorta
5	chr3:105272200-105312800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:105272400-105302800	Weak transcription	NHEK	skin
7	chr3:105273200-105303000	Weak transcription	HMEC	breast
8	chr3:105273400-105297600	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr3:105273400-105297600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr3:105273400-105299800	Weak transcription	NHDF-Ad	bronchial
11	chr3:105273800-105297400	Weak transcription	Primary hematopoietic stem cells	blood
12	chr3:105274000-105303000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:105277200-105299200	Weak transcription	Brain Hippocampus Middle	brain
14	chr3:105278600-105297400	Weak transcription	GM12878-XiMat	blood
15	chr3:105286400-105297600	Weak transcription	HUVEC	blood vessel
16	chr3:105291400-105297800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr3:105291600-105297600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr3:105292000-105303200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:105292200-105297800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr3:105296000-105297800	Weak transcription	Osteobl	bone
21	chr3:105296000-105298000	Weak transcription	HSMM	muscle
22	chr3:105296200-105297800	Weak transcription	Liver	Liver
23	chr3:105296200-105297800	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr3:105296200-105299200	Weak transcription	NH-A	brain
25	chr3:105296400-105298000	Weak transcription	Duodenum Mucosa	Duodenum
26	chr3:105296400-105298200	Weak transcription	Brain Substantia Nigra	brain
27	chr3:105296400-105299600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr3:105296600-105298000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr3:105296600-105299000	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr3:105296800-105299000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr3:105296800-105303200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr3:105297000-105303200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links