Variant report

Variant	rs12488218
Chromosome Location	chr3:56722519-56722520
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	chr3:56715854..56718511-chr3:56721135..56727135,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163946	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1045926	0.87[ASN][1000 genomes]
rs10865999	0.87[ASN][1000 genomes]
rs10866000	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11130536	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11130538	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11712256	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11712278	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs11715395	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11719656	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11921326	0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs12490749	0.91[ASN][1000 genomes]
rs12493637	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12636773	0.81[ASN][1000 genomes]
rs12715490	0.81[ASN][1000 genomes]
rs13094666	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13097030	0.81[ASN][1000 genomes]
rs13097288	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1352766	0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1565374	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1602190	0.80[ASN][1000 genomes]
rs17216740	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2004199	0.87[ASN][1000 genomes]
rs2029464	0.86[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2029465	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2035798	0.80[ASN][1000 genomes]
rs2291499	0.86[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2291501	0.87[ASN][1000 genomes]
rs2317133	0.87[ASN][1000 genomes]
rs2317245	0.90[ASN][1000 genomes]
rs35998149	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3732512	0.91[ASN][1000 genomes]
rs4681746	0.80[ASN][1000 genomes]
rs4681951	0.86[ASN][1000 genomes]
rs4681963	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4974220	0.81[ASN][1000 genomes]
rs66529035	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6774323	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6785479	0.86[ASN][1000 genomes]
rs6798118	0.86[ASN][1000 genomes]
rs6802051	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6804262	0.86[ASN][1000 genomes]
rs6805469	0.86[ASN][1000 genomes]
rs7432897	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7612599	0.87[ASN][1000 genomes]
rs7618024	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7626378	0.81[ASN][1000 genomes]
rs7629559	0.87[ASN][1000 genomes]
rs9820759	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9827472	0.85[AMR][1000 genomes]
rs9840528	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9841915	0.80[ASN][1000 genomes]
rs9845096	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9845655	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9846282	0.86[ASN][1000 genomes]
rs9858728	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9862490	0.86[ASN][1000 genomes]
rs9881005	0.81[ASN][1000 genomes]
rs9881154	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9881789	0.83[ASN][1000 genomes]
rs9881961	0.81[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs9985253	0.84[ASN][1000 genomes]
rs9985254	0.85[ASN][1000 genomes]

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56717600-56725200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:56717600-56725200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr3:56717800-56725200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr3:56717800-56725200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:56717800-56726800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:56718000-56723400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr3:56718000-56725200	Weak transcription	Dnd41	blood
8	chr3:56718000-56725200	Weak transcription	HMEC	breast
9	chr3:56718000-56727000	Weak transcription	Primary hematopoietic stem cells	blood
10	chr3:56718000-56727400	Weak transcription	HSMMtube	muscle
11	chr3:56718200-56725000	Weak transcription	Placenta	Placenta
12	chr3:56718400-56723400	Weak transcription	HepG2	liver
13	chr3:56718400-56727000	Weak transcription	HSMM	muscle
14	chr3:56718800-56726600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr3:56719000-56725800	Weak transcription	Fetal Thymus	thymus
16	chr3:56721400-56724000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr3:56721600-56723000	Enhancers	GM12878-XiMat	blood
18	chr3:56722200-56722600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr3:56722200-56722600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr3:56722200-56723600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr3:56722400-56722800	Enhancers	NHEK	skin
22	chr3:56722400-56726600	Weak transcription	Primary B cells from peripheral blood	blood
23	chr3:56722400-56727000	Weak transcription	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links