Variant report

Variant	rs2061929
Chromosome Location	chr3:140011602-140011603
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:140004703..140007058-chr3:140009329..140011674,2	MCF-7	breast:
2	chr3:140009863..140011937-chr3:140014588..140017496,2	K562	blood:
3	chr3:140009863..140012696-chr3:140014385..140017496,3	K562	blood:
4	chr3:140010384..140011884-chr3:140017839..140020263,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1011758	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs11717522	1.00[JPT][hapmap]
rs11917245	1.00[JPT][hapmap]
rs11927090	0.81[ASN][1000 genomes]
rs13319247	1.00[JPT][hapmap]
rs1351313	0.85[CEU][hapmap]
rs1383020	1.00[JPT][hapmap]
rs1383021	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs1479866	1.00[JPT][hapmap]
rs1479871	0.85[EUR][1000 genomes]
rs1531637	0.87[CEU][hapmap]
rs1564395	1.00[JPT][hapmap]
rs1564397	1.00[JPT][hapmap]
rs2061927	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2061928	0.94[ASN][1000 genomes]
rs2086330	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs3943277	1.00[JPT][hapmap]
rs4076964	1.00[JPT][hapmap]
rs4327349	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs4362682	1.00[JPT][hapmap]
rs4365587	1.00[JPT][hapmap]
rs4371479	1.00[JPT][hapmap]
rs4423726	1.00[CHB][hapmap]
rs4438621	1.00[JPT][hapmap]
rs4518083	1.00[JPT][hapmap]
rs4583599	1.00[JPT][hapmap]
rs4683484	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4683488	1.00[JPT][hapmap]
rs56834107	0.81[ASN][1000 genomes]
rs57446026	0.81[ASN][1000 genomes]
rs6439914	0.88[ASN][1000 genomes]
rs6765022	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6765087	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6773144	0.88[ASN][1000 genomes]
rs6784585	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs6792173	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs6802157	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs72990191	0.88[ASN][1000 genomes]
rs7431715	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7635923	0.81[ASN][1000 genomes]
rs967861	1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9811609	1.00[JPT][hapmap]
rs9817769	1.00[JPT][hapmap]
rs9855259	0.88[EUR][1000 genomes]
rs9864847	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs995578	1.00[JPT][hapmap];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432486	chr3:139924092-140049121	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv2757891	chr3:139925764-140524730	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv2759181	chr3:139925764-140524730	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv829740	chr3:139925767-140106169	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv527831	chr3:139932966-140533823	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv460867	chr3:140007294-140180563	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv591861	chr3:140007294-140180563	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	esv34489	chr3:140009020-140469302	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	esv2757012	chr3:140009220-140460228	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:139999600-140015600	Weak transcription	Pancreas	Pancrea
2	chr3:140004400-140015600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:140004800-140015600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr3:140006800-140013400	Enhancers	HMEC	breast
5	chr3:140007000-140012400	Enhancers	NHDF-Ad	bronchial
6	chr3:140007200-140012400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:140009400-140015400	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:140009800-140017800	Weak transcription	Right Atrium	heart
9	chr3:140010200-140012200	Enhancers	NH-A	brain
10	chr3:140010200-140012400	Enhancers	Muscle Satellite Cultured Cells	--
11	chr3:140010400-140012200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr3:140010400-140012200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr3:140010400-140012200	Enhancers	HSMM	muscle
14	chr3:140010400-140013400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:140010600-140012200	Enhancers	HSMMtube	muscle
16	chr3:140010600-140012400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr3:140010600-140014800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr3:140010800-140011800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr3:140011000-140012000	Enhancers	Fetal Lung	lung
20	chr3:140011000-140012600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr3:140011200-140012400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr3:140011200-140013400	Enhancers	NHEK	skin
23	chr3:140011600-140012800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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