Variant report

Variant	rs6080021
Chromosome Location	chr20:15897768-15897769
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs2281418	0.90[CHB][hapmap];0.81[CHD][hapmap];0.82[ASN][1000 genomes]
rs6034327	0.88[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6034328	0.89[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6034330	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6043620	0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6043624	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6074979	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs6074980	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs6074984	0.84[CHB][hapmap]
rs6080023	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]
rs6080048	0.90[CHB][hapmap];0.81[CHD][hapmap];0.82[ASN][1000 genomes]
rs6080050	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs6080069	0.84[CHB][hapmap]
rs6105492	0.95[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap];0.85[MEX][hapmap];0.98[ASN][1000 genomes]
rs6110832	0.84[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs6110836	0.95[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];0.95[ASN][1000 genomes]
rs6110847	0.84[CHB][hapmap];0.82[ASN][1000 genomes]
rs6110848	0.84[CHB][hapmap];0.82[ASN][1000 genomes]
rs6131738	0.95[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs6131745	0.84[CHB][hapmap];0.82[ASN][1000 genomes]
rs6131748	0.89[CHB][hapmap];0.81[ASN][1000 genomes]
rs6135612	0.95[CHB][hapmap];0.92[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs6135622	0.90[CHB][hapmap]
rs722337	0.89[CHB][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs766970	0.80[ASN][1000 genomes]
rs9967921	0.92[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:21 , 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	chr20:15893600-15899200	Weak transcription	Primary B cells from peripheral blood	blood
3	chr20:15894800-15897800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr20:15896000-15899000	Weak transcription	Primary B cells from cord blood	blood
5	chr20:15896400-15898200	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr20:15896600-15898800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr20:15896800-15897800	Enhancers	Placenta Amnion	Placenta Amnion
8	chr20:15896800-15898200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr20:15896800-15898800	Enhancers	HMEC	breast
10	chr20:15897000-15898200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr20:15897200-15898000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr20:15897200-15898200	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr20:15897200-15898200	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr20:15897200-15898200	Enhancers	Fetal Kidney	kidney
15	chr20:15897200-15898200	Flanking Active TSS	Hela-S3	cervix
16	chr20:15897200-15898400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr20:15897400-15897800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr20:15897400-15898200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr20:15897400-15898800	Enhancers	Rectal Smooth Muscle	rectum
20	chr20:15897600-15898200	Enhancers	Fetal Stomach	stomach
21	chr20:15897600-15898600	Enhancers	Colon Smooth Muscle	Colon

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