Variant report

Variant	rs9332515
Chromosome Location	chr1:169542799-169542800
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:169541824..169543359-chr1:169543755..169546590,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10489184	0.96[AFR][1000 genomes]
rs1557573	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16862358	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16862404	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2157583	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3917832	1.00[EUR][1000 genomes]
rs3917835	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3917844	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3917855	1.00[EUR][1000 genomes]
rs57207056	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57637273	1.00[AMR][1000 genomes]
rs58131257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60345655	1.00[EUR][1000 genomes]
rs60781559	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60864119	1.00[EUR][1000 genomes]
rs724510	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73035543	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73035547	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73035573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73037438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73037444	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74124515	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74124518	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9287094	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332478	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332479	1.00[EUR][1000 genomes]
rs9332480	1.00[MEX][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332482	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332483	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332485	1.00[EUR][1000 genomes]
rs9332486	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332488	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332489	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332490	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332491	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332492	1.00[MEX][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332493	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332494	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332496	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332498	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332499	1.00[EUR][1000 genomes]
rs9332501	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332506	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332508	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332518	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332524	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332527	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332530	1.00[EUR][1000 genomes]
rs9332532	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332539	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332565	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332569	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv548187	chr1:169530837-169559035	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv872534	chr1:169533266-169561274	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv872536	chr1:169538466-169547610	Active TSS Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
5	nsv872537	chr1:169538603-169547610	Enhancers Flanking Active TSS Genic enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169506200-169542800	Weak transcription	Right Ventricle	heart
2	chr1:169533200-169551600	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr1:169533400-169544600	Enhancers	Stomach Mucosa	stomach
4	chr1:169536400-169543600	Weak transcription	Left Ventricle	heart
5	chr1:169539800-169543800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr1:169540200-169547200	Genic enhancers	HepG2	liver
7	chr1:169540800-169543000	Enhancers	Placenta Amnion	Placenta Amnion
8	chr1:169541400-169543400	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr1:169541600-169543400	Enhancers	Liver	Liver
10	chr1:169541600-169550400	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr1:169542000-169544600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr1:169542000-169550400	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr1:169542200-169543600	Weak transcription	Right Atrium	heart
14	chr1:169542200-169554800	Weak transcription	Placenta	Placenta
15	chr1:169542600-169542800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links