Variant report

Variant	rs10869780
Chromosome Location	chr9:79060820-79060821
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:79059311..79060843-chr9:79133319..79135511,2	MCF-7	breast:
2	chr9:79058598..79061580-chr9:79067952..79069510,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10114264	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10121699	0.94[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes]
rs10124695	0.86[EUR][1000 genomes]
rs10735646	0.83[CEU][hapmap];0.91[CHB][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11144864	0.95[JPT][hapmap]
rs11144865	0.95[JPT][hapmap]
rs11144945	1.00[YRI][hapmap]
rs11788095	0.84[EUR][1000 genomes]
rs1535845	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1961995	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs2002423	0.85[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap]
rs2377639	0.95[JPT][hapmap]
rs2490572	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs2490576	0.84[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs2490584	0.85[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs2490586	0.94[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes]
rs2501920	0.85[EUR][1000 genomes]
rs2501925	0.90[JPT][hapmap]
rs2501930	0.85[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap]
rs4372070	0.95[JPT][hapmap]
rs4745544	0.94[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes]
rs638410	1.00[YRI][hapmap];0.84[AMR][1000 genomes]
rs6560519	0.89[EUR][1000 genomes]
rs6560522	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7847608	0.94[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893478	chr9:78933874-79101006	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv520423	chr9:79047117-79065299	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79057200-79062200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr9:79057200-79062600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr9:79057400-79062600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr9:79057400-79062600	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr9:79057400-79062600	Weak transcription	Osteobl	bone
6	chr9:79058000-79062800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr9:79060000-79061000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr9:79060000-79062200	Weak transcription	Fetal Intestine Small	intestine
9	chr9:79060000-79062200	Weak transcription	Stomach Mucosa	stomach
10	chr9:79060000-79062600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr9:79060000-79062600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr9:79060200-79062600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr9:79060600-79061400	Enhancers	GM12878-XiMat	blood
14	chr9:79060800-79061000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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