Variant report

Variant	rs9835060
Chromosome Location	chr3:118908226-118908227
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	chr3:118903436..118905729-chr3:118907568..118909269,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114638	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10511384	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs12695382	0.88[CEU][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.83[EUR][1000 genomes]
rs13070981	0.81[EUR][1000 genomes]
rs13094747	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs13098659	0.94[CEU][hapmap];0.84[JPT][hapmap];0.92[EUR][1000 genomes]
rs2001286	0.88[CEU][hapmap];0.92[CHB][hapmap];0.86[EUR][1000 genomes]
rs35816234	0.89[EUR][1000 genomes]
rs3752376	0.88[CEU][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.86[EUR][1000 genomes]
rs3752377	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs3796358	0.94[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.92[EUR][1000 genomes]
rs57446248	0.89[EUR][1000 genomes]
rs59140322	0.89[EUR][1000 genomes]
rs6438503	0.88[CEU][hapmap]
rs71325367	0.86[EUR][1000 genomes]
rs9289125	0.88[CEU][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.86[EUR][1000 genomes]
rs9812715	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs9818595	0.89[EUR][1000 genomes]
rs9824387	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs9832248	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs9834466	0.94[CEU][hapmap];0.92[EUR][1000 genomes]
rs9836230	0.86[EUR][1000 genomes]
rs9837110	0.88[CEU][hapmap];0.92[TSI][hapmap];0.83[EUR][1000 genomes]
rs9844382	0.93[CEU][hapmap];0.84[JPT][hapmap];0.86[EUR][1000 genomes]
rs9849672	0.86[EUR][1000 genomes]
rs9850349	0.88[CEU][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.83[EUR][1000 genomes]
rs9857127	0.87[CEU][hapmap];0.86[EUR][1000 genomes]
rs9858124	0.89[EUR][1000 genomes]
rs9862321	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs9869645	0.88[CEU][hapmap]
rs9874573	0.88[CEU][hapmap];0.89[EUR][1000 genomes]
rs9878996	0.94[CEU][hapmap]
rs9879593	0.94[CEU][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes]
rs9881379	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs9881947	0.88[CEU][hapmap];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	esv18354	chr3:118855337-119000251	Enhancers Genic enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv591361	chr3:118901832-118909987	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv527259	chr3:118906442-118916627	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv591362	chr3:118906442-118948155	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:118884000-118914200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:118900600-118908400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr3:118901000-118924200	Weak transcription	Pancreas	Pancrea
4	chr3:118903400-118924200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:118903800-118908600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:118904400-118910600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:118904400-118912800	Weak transcription	NH-A	brain
8	chr3:118904400-118913000	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr3:118904600-118936400	Weak transcription	Gastric	stomach
10	chr3:118904800-118910400	Weak transcription	HMEC	breast
11	chr3:118904800-118913000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:118904800-118914400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:118906800-118909400	Enhancers	A549	lung
14	chr3:118906800-118910400	Strong transcription	Placenta Amnion	Placenta Amnion
15	chr3:118907000-118910600	Weak transcription	Placenta	Placenta
16	chr3:118907400-118908400	Strong transcription	Fetal Stomach	stomach
17	chr3:118907600-118910600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr3:118908000-118908600	ZNF genes & repeats	Aorta	Aorta
19	chr3:118908000-118908600	Enhancers	Left Ventricle	heart
20	chr3:118908200-118908600	Enhancers	Right Ventricle	heart
21	chr3:118908200-118908800	Enhancers	Fetal Heart	heart
22	chr3:118908200-118909000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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