Variant report

Variant	rs6080023
Chromosome Location	chr20:15899400-15899401
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1012298	0.85[CHB][hapmap]
rs1339257	0.85[CHB][hapmap]
rs1339258	0.85[CHB][hapmap]
rs2281418	0.82[CHD][hapmap]
rs6034327	0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];0.97[ASN][1000 genomes]
rs6034328	1.00[CEU][hapmap];0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.80[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6034330	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6043620	1.00[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6043624	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6074984	0.84[CHB][hapmap]
rs6080021	0.89[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6080024	0.84[EUR][1000 genomes]
rs6080048	0.82[CHD][hapmap]
rs6080052	0.85[CHB][hapmap]
rs6080057	0.85[CHB][hapmap]
rs6080058	0.83[CHB][hapmap]
rs6080069	0.84[CHB][hapmap]
rs6105492	0.84[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6110832	0.95[CHB][hapmap];0.94[JPT][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6110836	0.84[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6110847	0.84[CHB][hapmap]
rs6110848	0.84[CHB][hapmap]
rs6131738	0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6131745	0.84[CHB][hapmap]
rs6131747	0.85[CHB][hapmap]
rs6135612	0.84[CHB][hapmap];0.92[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs722337	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs766970	0.85[CHB][hapmap]
rs9967921	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869328	chr20:15325423-16213898	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv833929	chr20:15765372-15977337	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3447866	chr20:15799286-16115291	Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15884400-15917400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr20:15897800-15907600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr20:15898200-15902600	Weak transcription	Fetal Stomach	stomach
4	chr20:15899000-15899400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr20:15899000-15902200	Enhancers	Primary B cells from cord blood	blood
6	chr20:15899200-15899800	Enhancers	Primary hematopoietic stem cells	blood
7	chr20:15899200-15903000	Enhancers	Primary B cells from peripheral blood	blood
8	chr20:15899400-15899600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr20:15899400-15899600	Enhancers	Fetal Kidney	kidney
10	chr20:15899400-15899800	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
11	chr20:15899400-15900000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr20:15899400-15900200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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