Variant report

Variant	rs6049337
Chromosome Location	chr20:24003946-24003947
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	chr20:23996001..23998841-chr20:24002099..24004850,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs16986162	0.84[ASN][1000 genomes]
rs16986164	0.86[EUR][1000 genomes]
rs3848801	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3859656	0.92[EUR][1000 genomes]
rs6036616	0.85[EUR][1000 genomes]
rs6036617	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6036619	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036620	0.92[EUR][1000 genomes]
rs6049338	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6049339	0.93[EUR][1000 genomes]
rs6049345	1.00[ASN][1000 genomes]
rs6049346	0.94[EUR][1000 genomes]
rs6049347	1.00[ASN][1000 genomes]
rs6049348	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6049349	1.00[ASN][1000 genomes]
rs6049350	1.00[ASN][1000 genomes]
rs6049351	1.00[ASN][1000 genomes]
rs6049352	0.89[EUR][1000 genomes]
rs6114414	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6114415	1.00[ASN][1000 genomes]
rs6114418	0.86[EUR][1000 genomes]
rs6114419	1.00[ASN][1000 genomes]
rs6114422	0.84[ASN][1000 genomes]
rs6114423	0.84[ASN][1000 genomes]
rs6114424	0.83[ASN][1000 genomes]
rs62195285	1.00[ASN][1000 genomes]
rs7344251	1.00[ASN][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	nsv491876	chr20:23436633-24031374	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv833944	chr20:23806288-24021865	Bivalent Enhancer Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1063474	chr20:23918394-24048069	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv1056491	chr20:23955040-24105080	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv585731	chr20:23989027-24024259	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24003800-24008000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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