Variant report

Variant	rs4748860
Chromosome Location	chr10:23605716-23605717
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	chr10:23605004..23607265-chr10:23613036..23614739,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10828415	0.81[JPT][hapmap]
rs10828425	0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs10828426	0.94[CEU][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10828427	0.93[ASN][1000 genomes]
rs11013364	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs11013369	0.91[JPT][hapmap];0.97[ASN][1000 genomes]
rs11013377	0.94[ASN][1000 genomes]
rs11013378	0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs11013386	0.95[ASN][1000 genomes]
rs11813971	0.89[ASN][1000 genomes]
rs12217944	0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs12569400	0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs1319250	0.83[EUR][1000 genomes]
rs3891382	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs4453119	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4454613	0.81[CHB][hapmap]
rs4587637	0.86[JPT][hapmap];0.96[ASN][1000 genomes]
rs4603206	0.94[ASW][hapmap];0.94[CEU][hapmap];0.83[CHD][hapmap];0.86[GIH][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4633356	0.83[EUR][1000 genomes]
rs4747456	0.82[EUR][1000 genomes]
rs4747458	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4747460	0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs4747461	0.91[JPT][hapmap];0.95[ASN][1000 genomes]
rs4747462	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4748844	0.86[JPT][hapmap]
rs4748848	0.88[CEU][hapmap]
rs4748851	0.94[CEU][hapmap];0.82[EUR][1000 genomes]
rs4748853	0.94[ASN][1000 genomes]
rs4748854	0.94[CEU][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4748855	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4748856	0.89[ASW][hapmap];0.94[CEU][hapmap];0.81[CHD][hapmap];0.86[GIH][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4748857	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4748858	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4748861	0.82[JPT][hapmap]
rs6482260	0.83[EUR][1000 genomes]
rs6482261	0.89[ASW][hapmap];0.84[CEU][hapmap];0.86[GIH][hapmap];0.88[MEX][hapmap];0.82[TSI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6482263	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7071705	0.82[EUR][1000 genomes]
rs7075197	0.89[ASW][hapmap];0.94[CEU][hapmap];0.86[GIH][hapmap];0.88[MEX][hapmap];0.82[TSI][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7082900	0.94[CEU][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7089898	0.89[ASW][hapmap];0.94[CEU][hapmap];0.86[GIH][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7095016	0.89[ASW][hapmap];0.89[CEU][hapmap];0.83[CHD][hapmap];0.82[GIH][hapmap];0.84[MEX][hapmap];0.82[AMR][1000 genomes]
rs72648296	0.94[ASN][1000 genomes]
rs7904429	0.97[ASN][1000 genomes]
rs9888000	1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv466834	chr10:23482635-23623523	Weak transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv550213	chr10:23482635-23623523	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv1805929	chr10:23605716-23607325	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv1818079	chr10:23605716-23607325	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:23599800-23632200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:23603200-23607200	Enhancers	Hela-S3	cervix
3	chr10:23605200-23606200	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr10:23605200-23606400	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
5	chr10:23605200-23612400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr10:23605400-23606200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links