Variant report

Variant	rs490821
Chromosome Location	chr5:111307907-111307908
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10042500	0.85[ASN][1000 genomes]
rs10050950	0.92[ASN][1000 genomes]
rs10071922	0.85[ASN][1000 genomes]
rs10072425	0.84[ASN][1000 genomes]
rs10463623	0.82[JPT][hapmap]
rs10463624	0.90[JPT][hapmap]
rs1116411	0.85[ASN][1000 genomes]
rs11241146	0.82[JPT][hapmap]
rs11959944	0.80[ASN][1000 genomes]
rs12187919	0.92[ASN][1000 genomes]
rs12516031	0.83[ASN][1000 genomes]
rs12516065	0.83[ASN][1000 genomes]
rs12520308	0.89[ASN][1000 genomes]
rs1389849	0.83[ASN][1000 genomes]
rs1389850	0.86[ASN][1000 genomes]
rs1389851	0.86[ASN][1000 genomes]
rs1494592	0.84[ASN][1000 genomes]
rs1507844	0.91[CEU][hapmap];0.91[CHB][hapmap]
rs1540687	0.83[CEU][hapmap];0.83[CHB][hapmap];0.82[ASN][1000 genomes]
rs1603082	0.85[ASN][1000 genomes]
rs25790	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs26541	0.84[EUR][1000 genomes]
rs26546	0.82[EUR][1000 genomes]
rs26557	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs26558	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs26561	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs26562	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs26563	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs27535	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34924	0.80[JPT][hapmap]
rs35091869	0.83[ASN][1000 genomes]
rs35303575	0.82[EUR][1000 genomes]
rs35658682	0.81[EUR][1000 genomes]
rs36069145	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs36133922	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs41142	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4296844	0.81[ASN][1000 genomes]
rs4596433	0.81[ASN][1000 genomes]
rs466033	0.91[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs491101	0.96[ASN][1000 genomes]
rs4957627	0.95[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs4957977	0.81[JPT][hapmap]
rs4957978	0.81[JPT][hapmap]
rs505575	0.87[ASN][1000 genomes]
rs512479	0.87[ASN][1000 genomes]
rs560063	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs586262	0.98[ASN][1000 genomes]
rs608642	0.87[ASN][1000 genomes]
rs622972	0.88[ASN][1000 genomes]
rs638424	0.90[ASN][1000 genomes]
rs6594545	0.83[CHB][hapmap]
rs6594552	0.85[ASN][1000 genomes]
rs6871530	0.81[ASN][1000 genomes]
rs7710690	0.81[JPT][hapmap]
rs7716521	0.87[CHB][hapmap];0.88[ASN][1000 genomes]
rs7728826	0.85[ASN][1000 genomes]
rs9326846	0.82[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599367	chr5:110924280-111602713	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:111304600-111308200	Weak transcription	Fetal Muscle Leg	muscle
2	chr5:111304600-111308400	Weak transcription	Fetal Stomach	stomach
3	chr5:111304600-111308400	Weak transcription	Rectal Smooth Muscle	rectum
4	chr5:111304600-111309000	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr5:111304600-111309400	Weak transcription	NHLF	lung
6	chr5:111304600-111309800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr5:111304600-111310600	Weak transcription	Right Atrium	heart
8	chr5:111304600-111312000	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr5:111304800-111308400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr5:111304800-111310600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr5:111305000-111308400	Weak transcription	Fetal Heart	heart
12	chr5:111305000-111308800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr5:111305000-111309400	Weak transcription	Osteobl	bone
14	chr5:111305200-111310400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr5:111305200-111310600	Weak transcription	NHDF-Ad	bronchial
16	chr5:111305400-111308400	Weak transcription	Fetal Lung	lung
17	chr5:111305800-111313400	Weak transcription	Primary B cells from cord blood	blood
18	chr5:111306200-111309200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr5:111306400-111310600	Weak transcription	Left Ventricle	heart
20	chr5:111307800-111308000	Enhancers	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links