Variant report

Variant	rs12272588
Chromosome Location	chr11:59445244-59445245
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	chr11:59435145..59438848-chr11:59444207..59446941,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000255355	Chromatin interaction
ENSG00000166889	Chromatin interaction

Extended variants
information (count: 180 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:178)

rs_ID	r²[population]
rs1121991	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11230020	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11230027	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11230037	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1151063	0.92[EUR][1000 genomes]
rs1151064	0.92[EUR][1000 genomes]
rs11821333	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs11821465	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12271188	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12276505	0.83[ASN][1000 genomes]
rs12278859	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12278910	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12280606	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12281969	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12285828	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12287975	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12289162	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12289921	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12292682	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12797334	0.88[EUR][1000 genomes]
rs1287111	0.92[EUR][1000 genomes]
rs1287441	0.88[EUR][1000 genomes]
rs1287442	0.86[EUR][1000 genomes]
rs1287446	0.88[EUR][1000 genomes]
rs1287448	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1287449	0.83[ASN][1000 genomes]
rs1290457	0.96[EUR][1000 genomes]
rs1290459	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs1299800	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17046	0.96[EUR][1000 genomes]
rs17153910	0.88[EUR][1000 genomes]
rs17154029	0.96[EUR][1000 genomes]
rs17154134	0.92[EUR][1000 genomes]
rs17154138	0.92[EUR][1000 genomes]
rs17154146	0.92[EUR][1000 genomes]
rs17154149	0.92[EUR][1000 genomes]
rs17154157	0.92[EUR][1000 genomes]
rs17154165	0.92[EUR][1000 genomes]
rs17154169	0.92[EUR][1000 genomes]
rs17154175	0.92[EUR][1000 genomes]
rs17154180	0.92[EUR][1000 genomes]
rs17154195	0.92[EUR][1000 genomes]
rs17154200	0.92[EUR][1000 genomes]
rs17154222	0.92[EUR][1000 genomes]
rs17154227	0.90[EUR][1000 genomes]
rs1783212	0.88[EUR][1000 genomes]
rs1938690	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2186597	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2447310	0.81[EUR][1000 genomes]
rs2508335	0.81[EUR][1000 genomes]
rs2509274	0.92[EUR][1000 genomes]
rs2509275	0.90[EUR][1000 genomes]
rs2509276	0.92[EUR][1000 genomes]
rs2509279	0.81[EUR][1000 genomes]
rs2509290	0.96[EUR][1000 genomes]
rs2509730	0.92[EUR][1000 genomes]
rs2927183	0.96[EUR][1000 genomes]
rs2957223	0.88[EUR][1000 genomes]
rs3015969	0.88[EUR][1000 genomes]
rs3019740	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3110322	0.80[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs3132748	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs34350918	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3781792	0.92[EUR][1000 genomes]
rs3781793	0.92[EUR][1000 genomes]
rs3862660	0.92[EUR][1000 genomes]
rs41384548	0.92[EUR][1000 genomes]
rs4301803	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4356243	0.90[EUR][1000 genomes]
rs4393334	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4515985	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs471369	0.81[EUR][1000 genomes]
rs472152	0.81[EUR][1000 genomes]
rs472177	0.87[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs473087	0.96[EUR][1000 genomes]
rs473490	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs474844	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs475706	0.96[EUR][1000 genomes]
rs477577	0.81[EUR][1000 genomes]
rs477729	0.81[EUR][1000 genomes]
rs478167	0.92[EUR][1000 genomes]
rs481893	0.81[EUR][1000 genomes]
rs482355	0.92[EUR][1000 genomes]
rs482356	0.92[EUR][1000 genomes]
rs484895	0.92[EUR][1000 genomes]
rs485008	0.92[EUR][1000 genomes]
rs485803	0.81[EUR][1000 genomes]
rs486587	0.92[EUR][1000 genomes]
rs488331	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs492652	0.96[EUR][1000 genomes]
rs4939294	0.88[EUR][1000 genomes]
rs494110	0.81[EUR][1000 genomes]
rs495564	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs496938	0.81[EUR][1000 genomes]
rs498099	0.81[EUR][1000 genomes]
rs498299	0.81[EUR][1000 genomes]
rs498388	0.96[EUR][1000 genomes]
rs499054	0.81[EUR][1000 genomes]
rs504016	0.92[EUR][1000 genomes]
rs507235	0.92[EUR][1000 genomes]
rs510122	0.92[EUR][1000 genomes]
rs510249	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs511785	0.92[EUR][1000 genomes]
rs511957	0.96[EUR][1000 genomes]
rs512194	0.84[EUR][1000 genomes]
rs512695	0.92[EUR][1000 genomes]
rs513979	0.81[EUR][1000 genomes]
rs516912	0.92[EUR][1000 genomes]
rs519605	0.92[EUR][1000 genomes]
rs519865	0.88[EUR][1000 genomes]
rs519873	0.88[EUR][1000 genomes]
rs521330	0.92[EUR][1000 genomes]
rs523016	0.92[EUR][1000 genomes]
rs524102	0.81[EUR][1000 genomes]
rs526672	0.81[EUR][1000 genomes]
rs528525	0.92[EUR][1000 genomes]
rs529270	0.92[EUR][1000 genomes]
rs532838	0.88[EUR][1000 genomes]
rs536910	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs537625	0.96[EUR][1000 genomes]
rs538169	0.81[EUR][1000 genomes]
rs540684	0.96[EUR][1000 genomes]
rs550189	0.96[EUR][1000 genomes]
rs550822	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs552601	0.96[EUR][1000 genomes]
rs553700	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs554149	0.96[EUR][1000 genomes]
rs554848	0.92[EUR][1000 genomes]
rs555175	0.92[EUR][1000 genomes]
rs55667192	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs561029	0.81[EUR][1000 genomes]
rs561604	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs562657	0.81[EUR][1000 genomes]
rs563267	0.81[EUR][1000 genomes]
rs563276	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs565983	0.92[EUR][1000 genomes]
rs567485	0.92[EUR][1000 genomes]
rs567603	0.92[EUR][1000 genomes]
rs567994	0.86[EUR][1000 genomes]
rs569326	0.92[EUR][1000 genomes]
rs573592	0.92[EUR][1000 genomes]
rs57529518	0.92[EUR][1000 genomes]
rs57871852	0.92[EUR][1000 genomes]
rs579192	0.96[EUR][1000 genomes]
rs579373	0.92[EUR][1000 genomes]
rs580242	0.96[EUR][1000 genomes]
rs581265	0.81[EUR][1000 genomes]
rs58169611	0.92[EUR][1000 genomes]
rs58775794	0.92[EUR][1000 genomes]
rs60009036	0.92[EUR][1000 genomes]
rs60094706	0.92[EUR][1000 genomes]
rs61636608	0.92[EUR][1000 genomes]
rs6591540	0.81[EUR][1000 genomes]
rs6591541	0.88[EUR][1000 genomes]
rs693110	0.88[EUR][1000 genomes]
rs7108731	0.81[EUR][1000 genomes]
rs7114773	0.92[EUR][1000 genomes]
rs7116567	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7119778	0.92[EUR][1000 genomes]
rs7123969	0.90[EUR][1000 genomes]
rs7124813	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7126593	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7131059	0.92[EUR][1000 genomes]
rs73486934	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73486962	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73486971	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73486979	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73486988	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73486997	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73488804	0.90[AMR][1000 genomes]
rs7933970	0.90[EUR][1000 genomes]
rs7941643	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs7946152	0.92[EUR][1000 genomes]
rs7947036	0.92[EUR][1000 genomes]
rs7947514	0.92[EUR][1000 genomes]
rs7952024	0.92[EUR][1000 genomes]
rs7952367	0.88[EUR][1000 genomes]
rs8280	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1802782	chr11:59383323-59448068	Genic enhancers Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv517878	chr11:59441271-59480969	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:59444000-59447400	Weak transcription	Fetal Intestine Large	intestine
2	chr11:59444000-59447800	Weak transcription	Liver	Liver
3	chr11:59444200-59446800	Weak transcription	Fetal Intestine Small	intestine
4	chr11:59445200-59446200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links