Variant report

Variant	rs4679790
Chromosome Location	chr3:157002984-157002985
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:156997473..157000192-chr3:157001265..157003413,2	K562	blood:
2	chr3:157001018..157003742-chr3:157209899..157211507,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LEKR1-4	chr3:157002767-157003080	ENSG00000243176.1

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1014855	0.85[JPT][hapmap]
rs10513510	0.82[CHB][hapmap]
rs10513512	0.81[CHB][hapmap]
rs1074864	0.85[JPT][hapmap]
rs10755111	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10804777	0.89[CEU][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10936063	0.82[CHB][hapmap]
rs10936066	0.82[CHB][hapmap]
rs10936075	0.84[ASN][1000 genomes]
rs10936077	0.89[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10936088	0.85[JPT][hapmap]
rs10936089	0.81[JPT][hapmap]
rs12486155	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12486304	0.81[AMR][1000 genomes]
rs12490120	0.93[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.92[YRI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12492801	0.82[CHB][hapmap]
rs12632562	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs12633099	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12633429	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs12634905	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12636125	0.82[CHB][hapmap]
rs12637932	0.89[CEU][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1403105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1403106	0.91[CHB][hapmap]
rs1403108	0.86[CHB][hapmap]
rs1403109	0.93[CEU][hapmap];0.96[CHB][hapmap];0.90[JPT][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1456104	0.85[JPT][hapmap]
rs1456109	0.85[JPT][hapmap]
rs1546260	0.92[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.81[YRI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1568611	0.87[CHB][hapmap]
rs2047647	0.89[CEU][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2321743	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2874616	0.91[CHB][hapmap]
rs4679789	0.85[ASN][1000 genomes]
rs4679791	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4680340	0.82[CHB][hapmap]
rs4680343	0.82[CHB][hapmap]
rs4680345	0.81[CHB][hapmap]
rs4680352	0.91[CHB][hapmap]
rs4680353	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5003893	0.82[CHB][hapmap]
rs55734537	0.90[AMR][1000 genomes]
rs56150358	0.81[ASN][1000 genomes]
rs6441115	0.82[CHB][hapmap]
rs6441116	0.82[CHB][hapmap]
rs6768074	0.80[CHB][hapmap]
rs6781682	0.82[CHB][hapmap]
rs6805989	0.82[CHB][hapmap]
rs6809307	0.82[CHB][hapmap]
rs73156724	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7621912	0.82[CHB][hapmap]
rs7648599	0.82[CHB][hapmap]
rs7649737	0.87[CHB][hapmap]
rs7652298	0.91[CHB][hapmap]
rs872652	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs8925	0.81[CHB][hapmap]
rs9831686	0.85[JPT][hapmap]
rs9848774	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv877687	chr3:156924793-157044184	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156967200-157007800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:156988000-157005800	Weak transcription	Pancreas	Pancrea
3	chr3:156997000-157004400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:156997600-157003600	Weak transcription	K562	blood
5	chr3:156998800-157006000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr3:156999600-157003800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr3:157000600-157003000	Weak transcription	Fetal Stomach	stomach
8	chr3:157000600-157004000	Enhancers	NHDF-Ad	bronchial
9	chr3:157000600-157015400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr3:157000800-157004000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr3:157001200-157003000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr3:157001400-157003200	Enhancers	HUVEC	blood vessel
13	chr3:157001600-157004000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:157001600-157008200	Weak transcription	NH-A	brain
15	chr3:157001800-157003000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr3:157001800-157003400	Enhancers	Osteobl	bone
17	chr3:157001800-157004200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr3:157001800-157004400	Enhancers	Muscle Satellite Cultured Cells	--
19	chr3:157002000-157003200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr3:157002000-157003600	Weak transcription	NHLF	lung
21	chr3:157002600-157003600	Enhancers	Fetal Lung	lung

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