Variant report

Variant	rs158544
Chromosome Location	chr20:52640828-52640829
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:52638922..52641694-chr20:52671102..52673075,2	MCF-7	breast:
2	chr20:52640367..52641889-chr20:52645625..52647973,2	K562	blood:
3	chr20:52637571..52639350-chr20:52639396..52641959,2	K562	blood:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1034843	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs158551	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs16998745	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs208364	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs208372	1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs208373	1.00[CHB][hapmap];0.92[JPT][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs208375	1.00[ASW][hapmap];0.86[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs208386	1.00[YRI][hapmap]
rs2276492	1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2276508	0.83[AMR][1000 genomes]
rs2276511	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2276512	1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2299727	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2299733	0.83[AMR][1000 genomes]
rs2299736	1.00[EUR][1000 genomes]
rs290389	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs290424	0.92[JPT][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs290425	1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs290426	1.00[AMR][1000 genomes]
rs290460	0.84[AFR][1000 genomes]
rs290461	1.00[YRI][hapmap]
rs290469	1.00[YRI][hapmap]
rs290470	1.00[YRI][hapmap]
rs36030456	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs458739	1.00[YRI][hapmap]
rs459454	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4811488	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6091791	1.00[EUR][1000 genomes]
rs6091792	1.00[EUR][1000 genomes]
rs6091796	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6097693	1.00[EUR][1000 genomes]
rs6097694	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6097697	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34060	chr20:52251863-52702186	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	296 gene(s)	inside rSNPs	diseases
2	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases
3	esv2763673	chr20:52637074-52668126	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region	13 gene(s)	inside rSNPs	diseases
4	nsv3419	chr20:52637581-52672115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52566400-52644800	Weak transcription	Gastric	stomach
2	chr20:52618800-52644400	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr20:52631400-52641400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr20:52633800-52641200	Weak transcription	Brain Angular Gyrus	brain
5	chr20:52634800-52645400	Weak transcription	Fetal Lung	lung
6	chr20:52635800-52641800	Enhancers	Brain Substantia Nigra	brain
7	chr20:52636000-52641200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr20:52639600-52641000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr20:52640200-52641000	Weak transcription	NHDF-Ad	bronchial
10	chr20:52640200-52641200	Weak transcription	Brain Anterior Caudate	brain
11	chr20:52640400-52642200	Strong transcription	Rectal Mucosa Donor 31	rectum
12	chr20:52640600-52641400	Genic enhancers	Brain Hippocampus Middle	brain
13	chr20:52640600-52641600	Strong transcription	Stomach Mucosa	stomach
14	chr20:52640800-52642000	Enhancers	Brain Cingulate Gyrus	brain
15	chr20:52640800-52643800	Enhancers	Fetal Brain Male	brain

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