Variant report

Variant	rs9516402
Chromosome Location	chr13:95014770-95014771
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	chr13:94922212..94923450-chr13:95014202..95015348,4	MCF-7	breast:
2	chr13:95014734..95017422-chr13:95021099..95023392,2	K562	blood:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10492629	0.82[JPT][hapmap];0.89[MEX][hapmap]
rs12584548	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17253857	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1924115	1.00[ASW][hapmap];0.90[CEU][hapmap];0.82[CHB][hapmap];0.89[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.90[MKK][hapmap];0.92[TSI][hapmap];0.85[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2274020	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs2274021	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs28378852	0.82[EUR][1000 genomes]
rs60277420	0.84[EUR][1000 genomes]
rs73551890	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7981682	0.82[EUR][1000 genomes]
rs7986556	0.89[CEU][hapmap];0.84[TSI][hapmap];0.82[EUR][1000 genomes]
rs7986931	0.89[CEU][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs8002396	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9516396	0.81[EUR][1000 genomes]
rs9516397	0.81[EUR][1000 genomes]
rs9516404	0.88[CEU][hapmap];0.94[CHB][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9524448	0.82[EUR][1000 genomes]
rs9524449	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs9524450	0.83[JPT][hapmap];0.87[EUR][1000 genomes]
rs9524463	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9589972	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9589974	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9589984	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9589986	0.82[JPT][hapmap]

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	nsv916640	chr13:94521959-95101443	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv533063	chr13:94560362-95101443	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv34004	chr13:94906537-95392644	Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv456077	chr13:94993032-95051560	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv562755	chr13:94993032-95051560	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:94997000-95034400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr13:95003800-95023400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr13:95004000-95022000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr13:95013400-95014800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr13:95013400-95015200	Enhancers	Liver	Liver
6	chr13:95013800-95014800	Enhancers	Fetal Heart	heart
7	chr13:95014000-95014800	Enhancers	HSMM	muscle
8	chr13:95014200-95014800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr13:95014200-95014800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr13:95014200-95015200	Enhancers	Colon Smooth Muscle	Colon
11	chr13:95014400-95014800	Enhancers	Fetal Brain Male	brain
12	chr13:95014400-95014800	Enhancers	Fetal Lung	lung
13	chr13:95014400-95015000	Enhancers	NHDF-Ad	bronchial
14	chr13:95014400-95015200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr13:95014400-95015200	Enhancers	Muscle Satellite Cultured Cells	--
16	chr13:95014600-95014800	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr13:95014600-95015000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr13:95014600-95015000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood

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