Variant report

Variant	rs10871304
Chromosome Location	chr16:75223491-75223492
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:75222835..75225106-chr16:75226473..75228261,2	K562	blood:
2	chr16:75202431..75208120-chr16:75221491..75224394,5	MCF-7	breast:
3	chr16:75181856..75183788-chr16:75222792..75224528,2	MCF-7	breast:
4	chr16:75221609..75224140-chr16:75225851..75227448,2	MCF-7	breast:
5	chr16:75221442..75223810-chr16:75231803..75233411,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213318	Chromatin interaction
ENSG00000184517	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1019539	1.00[CEU][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes]
rs12924999	0.85[CEU][hapmap]
rs1559361	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs1808427	0.85[CEU][hapmap]
rs2870466	0.88[EUR][1000 genomes]
rs2870467	0.92[EUR][1000 genomes]
rs3169330	0.86[CEU][hapmap]
rs4479268	1.00[CEU][hapmap];0.96[TSI][hapmap];0.96[EUR][1000 genomes]
rs4737	0.85[CEU][hapmap];0.86[TSI][hapmap]
rs4887808	0.88[EUR][1000 genomes]
rs4888355	0.90[EUR][1000 genomes]
rs4888356	0.85[CEU][hapmap]
rs55710608	0.84[ASN][1000 genomes]
rs58562298	0.94[ASN][1000 genomes]
rs59598548	0.88[ASN][1000 genomes]
rs6564219	0.82[EUR][1000 genomes]
rs6564220	0.86[EUR][1000 genomes]
rs6564221	1.00[CEU][hapmap];0.96[TSI][hapmap];0.96[EUR][1000 genomes]
rs6564222	0.96[EUR][1000 genomes]
rs6564223	0.95[EUR][1000 genomes]
rs7195938	0.84[CEU][hapmap]
rs7205074	0.81[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73619556	0.84[ASN][1000 genomes]
rs8046665	0.90[EUR][1000 genomes]
rs8047896	0.89[CHB][hapmap];0.90[CHD][hapmap];0.88[ASN][1000 genomes]
rs8048956	0.85[CEU][hapmap];0.82[TSI][hapmap]
rs8050765	0.84[EUR][1000 genomes]
rs8053265	0.93[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8055472	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8057145	0.85[CEU][hapmap];0.82[TSI][hapmap]
rs8057843	0.95[EUR][1000 genomes]
rs889515	0.85[CEU][hapmap];0.82[TSI][hapmap]
rs9319481	0.84[CEU][hapmap]
rs9921632	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9927264	0.85[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1061095	chr16:74519718-75407020	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
2	nsv532560	chr16:74692406-75411912	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	111 gene(s)	inside rSNPs	diseases
3	nsv916502	chr16:74845880-75732365	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	131 gene(s)	inside rSNPs	diseases
4	nsv1066130	chr16:74983759-75231161	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv1056082	chr16:75004990-75295847	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers 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	47 gene(s)	inside rSNPs	diseases
6	nsv833282	chr16:75154171-75330634	Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
7	nsv516504	chr16:75223491-75306402	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10871304	EXOSC6	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:75221400-75228000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr16:75222600-75223600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr16:75222600-75223600	Enhancers	Esophagus	oesophagus
4	chr16:75222600-75223800	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr16:75222800-75223800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr16:75223200-75223800	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
7	chr16:75223200-75224200	Enhancers	Placenta	Placenta
8	chr16:75223200-75224200	Bivalent Enhancer	Rectal Mucosa Donor 29	rectum
9	chr16:75223400-75226400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr16:75223400-75226400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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