Variant report

Variant	rs9870996
Chromosome Location	chr3:113238375-113238376
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:113216822..113219310-chr3:113237513..113239458,2	MCF-7	breast:
2	chr3:113229615..113239929-chr3:113247196..113257849,45	MCF-7	breast:

Variant related genes	Relation type
ENSG00000072858	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11537650	0.92[EUR][1000 genomes]
rs13082603	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs13092925	0.89[EUR][1000 genomes]
rs1463643	0.90[EUR][1000 genomes]
rs1471883	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1471884	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1552433	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861103	0.95[CEU][hapmap]
rs2054823	0.87[YRI][hapmap]
rs2087130	0.95[CEU][hapmap];0.92[EUR][1000 genomes]
rs2399477	0.95[CEU][hapmap];0.92[EUR][1000 genomes]
rs2399480	0.92[EUR][1000 genomes]
rs2669909	1.00[CEU][hapmap];0.81[CHB][hapmap];0.89[JPT][hapmap];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4396864	0.95[CEU][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes]
rs60634072	0.85[EUR][1000 genomes]
rs6438144	0.82[YRI][hapmap]
rs6438147	0.83[YRI][hapmap]
rs6438160	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6769604	1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6775574	0.87[YRI][hapmap]
rs6783387	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6793704	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72946748	0.85[EUR][1000 genomes]
rs7618226	0.90[EUR][1000 genomes]
rs7623919	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7625841	0.87[YRI][hapmap];0.81[AFR][1000 genomes]
rs7628945	0.90[EUR][1000 genomes]
rs7631335	0.90[EUR][1000 genomes]
rs7631730	0.87[AFR][1000 genomes]
rs7635676	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7637618	0.95[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7646188	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7650538	0.88[YRI][hapmap]
rs7650671	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9842559	1.00[CEU][hapmap];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9846539	0.92[EUR][1000 genomes]
rs9848087	0.87[YRI][hapmap]
rs9852703	1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9854686	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9866748	0.88[YRI][hapmap]
rs9869141	0.87[YRI][hapmap]
rs9874747	0.89[EUR][1000 genomes]
rs9877649	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv1004000	chr3:113116778-113513899	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv877349	chr3:113208224-113323787	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
4	nsv877350	chr3:113208224-113332235	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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