Variant report

Variant	rs13319247
Chromosome Location	chr3:140077999-140078000
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:140077666..140079764-chr3:140083559..140086376,4	MCF-7	breast:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs1026773	0.82[EUR][1000 genomes]
rs1026774	0.82[EUR][1000 genomes]
rs1026775	0.92[CEU][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1026776	0.84[AMR][1000 genomes]
rs1026777	0.84[AMR][1000 genomes]
rs1026778	0.84[AMR][1000 genomes]
rs1026779	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11707077	0.80[EUR][1000 genomes]
rs11714825	0.81[AMR][1000 genomes]
rs11714842	0.80[AMR][1000 genomes]
rs11716346	0.83[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs11717522	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs11719018	0.80[AMR][1000 genomes]
rs11719890	0.80[AMR][1000 genomes]
rs11917245	1.00[JPT][hapmap]
rs1383020	1.00[JPT][hapmap]
rs1479852	0.84[CHB][hapmap]
rs1479866	1.00[JPT][hapmap]
rs1479879	0.86[CHB][hapmap]
rs1564395	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1564397	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2061927	1.00[JPT][hapmap]
rs2061929	1.00[JPT][hapmap]
rs2086330	1.00[JPT][hapmap]
rs3943277	0.92[CEU][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4076964	1.00[JPT][hapmap]
rs4362682	1.00[JPT][hapmap]
rs4365587	1.00[JPT][hapmap]
rs4371479	1.00[JPT][hapmap]
rs4438621	1.00[JPT][hapmap]
rs4518083	1.00[JPT][hapmap]
rs4583599	1.00[JPT][hapmap]
rs4683484	1.00[JPT][hapmap]
rs4683488	1.00[JPT][hapmap]
rs6762256	0.92[CHB][hapmap];0.88[ASN][1000 genomes]
rs6765087	1.00[JPT][hapmap]
rs6766533	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs6770286	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6771702	0.84[CHB][hapmap]
rs6777920	0.82[EUR][1000 genomes]
rs6789020	0.85[EUR][1000 genomes]
rs6790930	0.82[EUR][1000 genomes]
rs6794692	0.80[EUR][1000 genomes]
rs6794805	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6795632	0.81[AMR][1000 genomes]
rs7431715	1.00[JPT][hapmap]
rs7610675	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs7623769	0.82[AMR][1000 genomes]
rs9811609	1.00[JPT][hapmap]
rs9814193	0.82[EUR][1000 genomes]
rs9817769	1.00[JPT][hapmap]
rs9837886	0.86[EUR][1000 genomes]
rs9838521	0.85[EUR][1000 genomes]
rs9874598	0.82[EUR][1000 genomes]
rs995578	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757891	chr3:139925764-140524730	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv2759181	chr3:139925764-140524730	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv829740	chr3:139925767-140106169	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv527831	chr3:139932966-140533823	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv460867	chr3:140007294-140180563	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv591861	chr3:140007294-140180563	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv34489	chr3:140009020-140469302	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	esv2757012	chr3:140009220-140460228	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv818169	chr3:140014763-140182046	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv1001430	chr3:140016999-140186498	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv998953	chr3:140017168-140186984	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv536731	chr3:140017168-140186984	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv829741	chr3:140021063-140183294	Enhancers Genic enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
14	nsv1004500	chr3:140021594-140189148	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
15	esv2154399	chr3:140077997-140077999	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140061800-140084800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:140073800-140085000	Weak transcription	HSMMtube	muscle
3	chr3:140074400-140078000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:140076800-140078000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:140076800-140079000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:140077000-140082400	Weak transcription	Ovary	ovary
7	chr3:140077600-140078000	Enhancers	H1 Cell Line	embryonic stem cell

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