Variant report

Variant	rs2016652
Chromosome Location	chr1:224957005-224957006
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:224955610..224958002-chr1:225004136..225006247,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12097622	0.82[EUR][1000 genomes]
rs1316512	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1361923	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1436166	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16858831	1.00[YRI][hapmap]
rs1892121	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1936632	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1961688	0.89[JPT][hapmap]
rs2252950	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2501078	0.87[JPT][hapmap]
rs2574874	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2574876	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2574877	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2574879	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2574881	0.84[AMR][1000 genomes]
rs2662906	0.88[ASN][1000 genomes]
rs2662907	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2662922	0.84[AMR][1000 genomes]
rs2662923	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2662924	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2662925	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2662927	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2662929	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2802552	1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2802556	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2802558	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2802559	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2802561	0.86[AMR][1000 genomes]
rs2802562	0.88[JPT][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2802563	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2802740	0.82[AMR][1000 genomes]
rs2802744	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2997478	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2997499	0.85[AMR][1000 genomes]
rs2997501	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3012182	1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3012184	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs56237431	0.82[EUR][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	nsv524125	chr1:224902054-225021860	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224953000-224960800	Weak transcription	Pancreas	Pancrea
2	chr1:224955200-224957800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr1:224956000-224966400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr1:224956600-224958400	Enhancers	Dnd41	blood
5	chr1:224956800-224958200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links