Variant report

Variant	rs17267366
Chromosome Location	chr20:53556236-53556237
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:62388286..62389270-chr20:53556195..53557221,3	MCF-7	breast:
2	chr17:62386547..62391340-chr20:53548880..53558881,15	MCF-7	breast:
3	chr17:62388086..62388794-chr20:53556129..53556718,2	MCF-7	breast:
4	chr20:53555216..53557434-chr3:64517545..64519675,2	MCF-7	breast:
5	chr17:62386971..62389896-chr20:53555496..53558705,8	MCF-7	breast:
6	chr20:53538982..53541725-chr20:53555678..53557256,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163638	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1125961	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1398113	0.86[EUR][1000 genomes]
rs1499870	0.88[ASN][1000 genomes]
rs2022186	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs283277	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs283278	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs283279	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs283280	0.93[EUR][1000 genomes]
rs288829	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs365610	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs366808	0.89[CEU][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs373968	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs392646	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs415667	1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[ASN][1000 genomes]
rs423867	1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[ASN][1000 genomes]
rs430767	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs431022	0.84[CEU][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs444445	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs451817	0.98[ASN][1000 genomes]
rs4811542	0.87[EUR][1000 genomes]
rs4811544	0.82[EUR][1000 genomes]
rs6014185	0.81[EUR][1000 genomes]
rs6014211	0.88[EUR][1000 genomes]
rs6023655	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs6023669	0.86[EUR][1000 genomes]
rs6023673	0.89[EUR][1000 genomes]
rs6064129	0.88[EUR][1000 genomes]
rs6069016	0.95[CEU][hapmap];0.85[EUR][1000 genomes]
rs6123426	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs6123433	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6127310	0.87[EUR][1000 genomes]
rs6127331	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6127333	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6127334	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6127345	0.83[EUR][1000 genomes]
rs912507	0.85[CEU][hapmap];0.80[EUR][1000 genomes]
rs912510	0.94[CEU][hapmap];0.86[EUR][1000 genomes]
rs912511	0.86[EUR][1000 genomes]
rs912512	0.95[CEU][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067497	chr20:53146241-53751820	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
2	nsv1064144	chr20:53175264-53750137	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
3	nsv544302	chr20:53175264-53750137	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
4	nsv1060552	chr20:53234716-53655115	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases
5	nsv521883	chr20:53497139-53563837	Enhancers Active TSS Flanking Active TSS Weak transcription	Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv524442	chr20:53497139-53563837	Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
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