Variant report

Variant	rs61590736
Chromosome Location	chr20:22540461-22540462
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:22537625..22541473-chr20:22546828..22550085,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FOXA2-2	chr20:22540059-22541733	NONHSAT078988

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1157319	1.00[AMR][1000 genomes]
rs12624528	1.00[AMR][1000 genomes]
rs1415812	1.00[AMR][1000 genomes]
rs16984026	1.00[AMR][1000 genomes]
rs16984047	1.00[AMR][1000 genomes]
rs1933205	1.00[AMR][1000 genomes]
rs3920804	1.00[AMR][1000 genomes]
rs55643169	1.00[AMR][1000 genomes]
rs55663904	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55789916	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55848868	1.00[AMR][1000 genomes]
rs58225430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60516763	1.00[AMR][1000 genomes]
rs6106535	1.00[AMR][1000 genomes]
rs72470560	1.00[AMR][1000 genomes]
rs7270376	1.00[AMR][1000 genomes]
rs7270463	1.00[AMR][1000 genomes]
rs73900505	1.00[AMR][1000 genomes]
rs73900511	1.00[AMR][1000 genomes]
rs73900515	1.00[AMR][1000 genomes]
rs73900516	1.00[AMR][1000 genomes]
rs73900531	1.00[AMR][1000 genomes]
rs73900532	1.00[AMR][1000 genomes]
rs73900535	1.00[AMR][1000 genomes]
rs73902812	1.00[AMR][1000 genomes]
rs73902816	1.00[AMR][1000 genomes]
rs73902820	1.00[AMR][1000 genomes]
rs73902823	1.00[AMR][1000 genomes]
rs73902824	1.00[AMR][1000 genomes]
rs73902838	1.00[AMR][1000 genomes]
rs73902839	1.00[AMR][1000 genomes]
rs73902840	1.00[AMR][1000 genomes]
rs73902841	1.00[AMR][1000 genomes]
rs73902843	1.00[AMR][1000 genomes]
rs73902845	1.00[AMR][1000 genomes]
rs73902848	1.00[AMR][1000 genomes]
rs73902849	1.00[AMR][1000 genomes]
rs73902851	1.00[AMR][1000 genomes]
rs73902855	1.00[AMR][1000 genomes]
rs73902857	1.00[AMR][1000 genomes]
rs73902859	1.00[AMR][1000 genomes]
rs73902863	1.00[AMR][1000 genomes]
rs73902864	1.00[AMR][1000 genomes]
rs73902865	1.00[AMR][1000 genomes]
rs73902866	1.00[AMR][1000 genomes]
rs73902868	1.00[AMR][1000 genomes]
rs73902874	1.00[AMR][1000 genomes]
rs73902880	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73902891	1.00[AFR][1000 genomes]
rs73902892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73902897	1.00[AFR][1000 genomes]
rs73902898	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73902900	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73902901	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73902902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73904103	0.95[AFR][1000 genomes]
rs73904105	0.95[AFR][1000 genomes]
rs73904107	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8118829	1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428690	chr20:22528757-22649625	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:22515000-22544200	Weak transcription	Pancreas	Pancrea
2	chr20:22536200-22544800	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
3	chr20:22536800-22545200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
4	chr20:22537200-22542400	Weak transcription	K562	blood
5	chr20:22537600-22543800	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
6	chr20:22539000-22540800	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
7	chr20:22539200-22540800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
8	chr20:22539200-22542400	Weak transcription	HepG2	liver
9	chr20:22539400-22545200	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
10	chr20:22540000-22548800	Weak transcription	Gastric	stomach
11	chr20:22540400-22540600	Bivalent Enhancer	H9 Cell Line	embryonic stem cell

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