Variant report

Variant	rs2053857
Chromosome Location	chr15:73232762-73232763
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:73230570..73234039-chr15:73235641..73238215,3	MCF-7	breast:

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs1080331	0.85[ASN][1000 genomes]
rs1080332	0.85[ASN][1000 genomes]
rs11072398	0.84[ASN][1000 genomes]
rs11632783	0.81[ASN][1000 genomes]
rs11639220	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11857236	0.80[AMR][1000 genomes]
rs12438940	0.85[ASN][1000 genomes]
rs12440392	0.80[ASN][1000 genomes]
rs12441946	0.80[JPT][hapmap]
rs12442084	0.84[ASN][1000 genomes]
rs12592939	0.81[ASN][1000 genomes]
rs12594272	0.81[ASN][1000 genomes]
rs12901593	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1449267	0.85[ASN][1000 genomes]
rs1449269	0.84[JPT][hapmap]
rs1449270	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1466111	0.84[ASN][1000 genomes]
rs1823338	0.85[ASN][1000 genomes]
rs1839270	0.80[JPT][hapmap]
rs1839271	0.81[ASN][1000 genomes]
rs1868473	0.80[AMR][1000 genomes]
rs1900901	0.91[ASN][1000 genomes]
rs1979106	0.84[ASN][1000 genomes]
rs2122217	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2197894	0.80[AMR][1000 genomes]
rs2415209	0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs28424084	0.81[ASN][1000 genomes]
rs28451690	0.81[ASN][1000 genomes]
rs28513521	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs28615518	0.80[ASN][1000 genomes]
rs28647826	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs28666516	0.81[ASN][1000 genomes]
rs28686814	0.81[ASN][1000 genomes]
rs34173815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4076146	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4238456	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4238457	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4238458	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4260029	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4260030	0.81[ASN][1000 genomes]
rs4286085	0.80[ASN][1000 genomes]
rs4297657	0.81[ASN][1000 genomes]
rs4328412	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4360901	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4366688	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4374145	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4383117	0.81[ASN][1000 genomes]
rs4401026	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4430712	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4511500	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4522396	0.81[ASN][1000 genomes]
rs4563021	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4572358	0.81[ASN][1000 genomes]
rs4575500	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4597288	0.81[ASN][1000 genomes]
rs4776621	0.81[ASN][1000 genomes]
rs4777569	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4777577	0.90[JPT][hapmap]
rs60053960	0.86[ASN][1000 genomes]
rs60557800	0.84[ASN][1000 genomes]
rs6495033	0.82[ASN][1000 genomes]
rs6495035	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6495036	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6495037	0.80[ASN][1000 genomes]
rs6495038	0.80[ASN][1000 genomes]
rs6495039	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6495040	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6495042	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7163543	1.00[YRI][hapmap]
rs7164304	0.82[ASN][1000 genomes]
rs7165104	0.81[ASN][1000 genomes]
rs7165325	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7165504	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7165834	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7166470	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7178831	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7180332	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7183175	0.81[ASN][1000 genomes]
rs7496513	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8025463	0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs8025665	0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs8028981	0.82[AMR][1000 genomes]
rs8031589	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8033793	0.81[ASN][1000 genomes]
rs8033860	0.81[ASN][1000 genomes]
rs8033954	0.81[ASN][1000 genomes]
rs8034120	0.81[ASN][1000 genomes]
rs8036013	0.83[ASN][1000 genomes]
rs921260	0.81[ASN][1000 genomes]
rs921261	0.81[ASN][1000 genomes]
rs9806341	0.82[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	esv3352103	chr15:73191535-73454001	Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 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	chr15:73229400-73238200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:73231000-73233000	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr15:73231200-73232800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:73231200-73233600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr15:73231400-73232800	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr15:73231400-73232800	Enhancers	Fetal Brain Male	brain
7	chr15:73231600-73236600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:73231800-73233000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr15:73232000-73232800	Enhancers	Rectal Mucosa Donor 29	rectum
10	chr15:73232400-73232800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr15:73232400-73232800	Enhancers	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links