Variant report

Variant	rs2064902
Chromosome Location	chr1:120018419-120018420
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:120018156..120019153-chr1:120086160..120087070,2	MCF-7	breast:
2	chr1:120018192..120019111-chr1:120086522..120087269,6	MCF-7	breast:

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1047303	0.83[ASN][1000 genomes]
rs10733103	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10737753	0.91[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs10754397	0.98[EUR][1000 genomes]
rs10754406	0.92[CEU][hapmap]
rs10754407	0.86[CEU][hapmap]
rs10802100	0.91[EUR][1000 genomes]
rs10802101	0.98[EUR][1000 genomes]
rs10923838	0.99[EUR][1000 genomes]
rs10923839	0.99[EUR][1000 genomes]
rs10923852	0.92[CEU][hapmap]
rs10923853	0.92[CEU][hapmap]
rs12084925	0.83[ASN][1000 genomes]
rs12139993	0.94[EUR][1000 genomes]
rs12403142	0.92[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs13374289	0.92[CEU][hapmap]
rs1856888	0.91[EUR][1000 genomes]
rs1977208	0.83[ASN][1000 genomes]
rs1983726	0.83[ASN][1000 genomes]
rs1998181	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1998182	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2010580	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2010807	0.94[EUR][1000 genomes]
rs2011178	0.98[EUR][1000 genomes]
rs2011191	0.98[EUR][1000 genomes]
rs2064901	0.98[EUR][1000 genomes]
rs2093189	0.92[EUR][1000 genomes]
rs2104039	0.92[EUR][1000 genomes]
rs2208380	0.83[ASN][1000 genomes]
rs2208381	0.91[CEU][hapmap]
rs2208382	0.91[CEU][hapmap]
rs2224397	0.91[CEU][hapmap]
rs2362820	0.92[CEU][hapmap]
rs2885612	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3737653	0.92[CEU][hapmap]
rs3765945	0.95[CEU][hapmap];0.90[EUR][1000 genomes]
rs4515838	0.91[EUR][1000 genomes]
rs4659007	0.96[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4659008	0.83[ASN][1000 genomes]
rs4659009	0.92[CEU][hapmap]
rs4659182	0.93[EUR][1000 genomes]
rs4659191	0.83[ASN][1000 genomes]
rs6428829	0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6428830	0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6657934	0.95[CEU][hapmap]
rs6667572	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6667901	0.92[EUR][1000 genomes]
rs6668763	0.91[CEU][hapmap]
rs6684370	0.83[ASN][1000 genomes]
rs6686779	0.92[EUR][1000 genomes]
rs6691637	0.83[ASN][1000 genomes]
rs7515615	0.83[ASN][1000 genomes]
rs7517005	0.83[ASN][1000 genomes]
rs7534643	0.94[EUR][1000 genomes]
rs911241	0.98[EUR][1000 genomes]
rs911244	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs911245	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs927208	0.83[ASN][1000 genomes]
rs9659330	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932014	chr1:119476480-120471049	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	86 gene(s)	inside rSNPs	diseases
2	nsv917091	chr1:119688975-120023222	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	esv34089	chr1:119752112-120072961	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv1000391	chr1:119837978-120287056	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	nsv535077	chr1:119837978-120287056	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
6	nsv1004662	chr1:119847447-120154798	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
7	esv2763647	chr1:119929442-120154798	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
8	nsv1000939	chr1:119983342-120471049	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
9	nsv1002204	chr1:119998794-120033837	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv1013126	chr1:119998794-120036937	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	esv2757749	chr1:120016696-120214577	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
12	esv2758964	chr1:120016696-120214577	Enhancers ZNF genes & repeats Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:120017200-120019200	Enhancers	Liver	Liver
2	chr1:120018200-120018800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr1:120018200-120019000	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr1:120018400-120019000	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr1:120018400-120019000	Enhancers	Fetal Intestine Large	intestine
6	chr1:120018400-120019000	Enhancers	Fetal Intestine Small	intestine
7	chr1:120018400-120019000	Enhancers	Pancreas	Pancrea
8	chr1:120018400-120019400	Enhancers	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links