Variant report

Variant	rs1027380
Chromosome Location	chr3:23346215-23346216
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs11711630	0.88[ASN][1000 genomes]
rs11715107	0.88[ASN][1000 genomes]
rs13087416	0.88[ASN][1000 genomes]
rs13095887	0.86[ASN][1000 genomes]
rs1390083	0.88[ASN][1000 genomes]
rs1495133	0.97[ASN][1000 genomes]
rs1495134	0.81[ASN][1000 genomes]
rs1552931	0.81[ASN][1000 genomes]
rs17342342	0.88[ASN][1000 genomes]
rs1994953	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2047340	0.82[ASN][1000 genomes]
rs2055155	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2088129	0.97[ASN][1000 genomes]
rs2101811	0.80[EUR][1000 genomes]
rs2132144	0.90[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2132145	0.82[ASN][1000 genomes]
rs2132147	0.97[ASN][1000 genomes]
rs2132149	0.86[ASN][1000 genomes]
rs2201481	0.81[ASN][1000 genomes]
rs2359754	0.84[EUR][1000 genomes]
rs2359760	0.83[ASN][1000 genomes]
rs36073188	0.86[ASN][1000 genomes]
rs4293660	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4334589	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4858065	0.88[ASN][1000 genomes]
rs4858066	0.88[ASN][1000 genomes]
rs4858488	0.95[ASN][1000 genomes]
rs4858489	0.83[EUR][1000 genomes]
rs4858490	0.83[EUR][1000 genomes]
rs4858495	0.94[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs4858498	0.96[ASN][1000 genomes]
rs4858499	0.90[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4858507	0.81[EUR][1000 genomes]
rs5023615	0.85[EUR][1000 genomes]
rs6550754	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6550758	0.89[EUR][1000 genomes]
rs6769959	0.93[ASN][1000 genomes]
rs6790185	0.97[ASN][1000 genomes]
rs6790327	0.85[EUR][1000 genomes]
rs6806387	0.99[ASN][1000 genomes]
rs73149661	0.88[ASN][1000 genomes]
rs7618910	0.96[ASN][1000 genomes]
rs7621680	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7629327	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7635882	0.97[ASN][1000 genomes]
rs7636532	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7648425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7653868	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs903519	0.88[ASN][1000 genomes]
rs9815299	0.88[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9823684	0.82[EUR][1000 genomes]
rs9826103	0.97[ASN][1000 genomes]
rs9840015	0.97[ASN][1000 genomes]
rs9840808	0.94[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9841336	0.85[EUR][1000 genomes]
rs9844558	0.97[ASN][1000 genomes]
rs9848331	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9848389	0.85[EUR][1000 genomes]
rs9849679	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9863465	0.85[EUR][1000 genomes]
rs9875910	0.80[EUR][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	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
5	nsv1004417	chr3:23318797-23389422	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv967177	chr3:23337450-23350050	Weak transcription Enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23337600-23358400	Weak transcription	Primary B cells from peripheral blood	blood
2	chr3:23343000-23347200	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:23343200-23350200	Weak transcription	Psoas Muscle	Psoas
4	chr3:23343400-23346600	Weak transcription	Ovary	ovary
5	chr3:23343600-23347800	Enhancers	HSMMtube	muscle
6	chr3:23343800-23355200	Weak transcription	Aorta	Aorta
7	chr3:23344400-23346800	Enhancers	Fetal Lung	lung
8	chr3:23344600-23346400	Weak transcription	Adipose Nuclei	Adipose
9	chr3:23344600-23353400	Weak transcription	Left Ventricle	heart
10	chr3:23344600-23356600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:23345000-23350200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr3:23345200-23346800	Enhancers	HSMM	muscle
13	chr3:23345200-23348000	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr3:23345400-23346800	Enhancers	NHLF	lung
15	chr3:23345400-23347000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:23345600-23346400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:23345600-23346800	Enhancers	Muscle Satellite Cultured Cells	--
18	chr3:23345600-23347200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:23345600-23354000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr3:23345800-23346600	Weak transcription	Fetal Kidney	kidney
21	chr3:23345800-23346600	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr3:23345800-23346800	Weak transcription	Colon Smooth Muscle	Colon
23	chr3:23345800-23356400	Weak transcription	NHDF-Ad	bronchial
24	chr3:23345800-23358600	Weak transcription	Fetal Stomach	stomach
25	chr3:23346200-23346400	Enhancers	Brain Inferior Temporal Lobe	brain
26	chr3:23346200-23347000	Enhancers	Duodenum Smooth Muscle	Duodenum
27	chr3:23346200-23347800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links