Variant report

Variant	rs73133280
Chromosome Location	chr5:92865005-92865006
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs11135388	0.93[EUR][1000 genomes]
rs11951859	0.90[EUR][1000 genomes]
rs11952115	0.91[EUR][1000 genomes]
rs11952600	0.92[EUR][1000 genomes]
rs11960608	0.91[EUR][1000 genomes]
rs12186735	0.93[ASN][1000 genomes]
rs12187239	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12188716	0.93[ASN][1000 genomes]
rs12188845	0.92[EUR][1000 genomes]
rs12188905	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1370977	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1457101	0.93[EUR][1000 genomes]
rs17082127	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17082129	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17083145	0.90[EUR][1000 genomes]
rs17083155	0.88[AFR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17083181	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17083191	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17083194	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17083198	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17083200	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17083213	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17083228	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17370695	0.93[ASN][1000 genomes]
rs1824153	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1844343	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2083227	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2279473	0.93[ASN][1000 genomes]
rs2344387	0.92[EUR][1000 genomes]
rs3776601	0.93[ASN][1000 genomes]
rs55861967	0.90[EUR][1000 genomes]
rs57165666	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57690257	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59360932	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61324921	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61352323	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6556823	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6556824	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6556826	0.82[EUR][1000 genomes]
rs6866771	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6879816	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6880843	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6889857	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133214	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73133217	0.81[AFR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73133226	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73133228	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73133239	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73133251	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133254	0.90[EUR][1000 genomes]
rs73133258	0.92[EUR][1000 genomes]
rs73133261	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133265	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133275	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133278	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133282	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133283	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133287	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133289	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133292	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133301	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73135313	0.88[EUR][1000 genomes]
rs73135320	0.93[ASN][1000 genomes]
rs73135321	0.93[ASN][1000 genomes]
rs73772907	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7712899	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7715034	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7727107	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][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	nsv1022355	chr5:92846496-92911797	Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	n/a
2	nsv537807	chr5:92846496-92911797	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	n/a
3	nsv882382	chr5:92853645-92891029	Strong transcription ZNF genes & repeats Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	lncRNA	8 gene(s)	inside rSNPs	n/a
4	esv3451945	chr5:92858750-93024740	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:92856200-92867000	Weak transcription	NHLF	lung
2	chr5:92856200-92867400	Weak transcription	Osteobl	bone
3	chr5:92856200-92868200	Weak transcription	NH-A	brain
4	chr5:92856800-92887200	Weak transcription	HUVEC	blood vessel
5	chr5:92857800-92872200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr5:92859200-92867200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr5:92859200-92867800	Weak transcription	HSMM	muscle
8	chr5:92859200-92905000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr5:92859400-92866000	Weak transcription	Ovary	ovary
10	chr5:92859400-92867400	Weak transcription	Brain Angular Gyrus	brain
11	chr5:92859400-92868200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr5:92859400-92905000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr5:92859400-92905600	Weak transcription	Placenta	Placenta
14	chr5:92859600-92867200	Weak transcription	Stomach Smooth Muscle	stomach
15	chr5:92859600-92872400	Weak transcription	Fetal Stomach	stomach
16	chr5:92859600-92900400	Weak transcription	Fetal Intestine Small	intestine
17	chr5:92860000-92908000	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr5:92860200-92865800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr5:92860400-92880000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr5:92861600-92867000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr5:92862400-92868200	Weak transcription	Fetal Brain Male	brain
22	chr5:92862600-92866000	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr5:92862600-92867200	Weak transcription	Fetal Lung	lung
24	chr5:92862800-92887800	Weak transcription	Brain Germinal Matrix	brain
25	chr5:92864200-92868000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr5:92864200-92872000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr5:92864800-92865200	Strong transcription	Fetal Kidney	kidney
28	chr5:92865000-92865200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links