Variant report

Variant	rs4476687
Chromosome Location	chr5:59239645-59239646
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	chr5:59235055..59237552-chr5:59238015..59240745,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10043558	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10069878	0.85[CEU][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10805517	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs10805518	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10940650	0.85[YRI][hapmap]
rs1347401	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1369285	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.82[MEX][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1369288	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1435070	0.95[CEU][hapmap];0.82[MEX][hapmap];0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs1435080	0.95[CEU][hapmap];0.92[CHB][hapmap];0.87[CHD][hapmap];0.94[JPT][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1435081	0.88[EUR][1000 genomes]
rs1435084	0.95[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1583435	0.95[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16890396	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17315537	0.91[MKK][hapmap]
rs1949016	0.85[EUR][1000 genomes]
rs1949017	0.95[CEU][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes]
rs1983174	0.95[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2572067	0.95[CEU][hapmap];0.85[EUR][1000 genomes]
rs2662432	0.95[CEU][hapmap];0.84[EUR][1000 genomes]
rs2916866	1.00[ASW][hapmap];0.95[CEU][hapmap];0.95[GIH][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2916867	1.00[CEU][hapmap];0.97[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2963806	0.91[CHB][hapmap]
rs2963807	0.91[CHB][hapmap]
rs2963808	0.91[CHB][hapmap]
rs2963811	0.91[CHB][hapmap]
rs2963812	0.95[CEU][hapmap];0.85[EUR][1000 genomes]
rs4699949	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4699950	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4700349	0.81[JPT][hapmap];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4700350	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6876320	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6881702	0.95[CEU][hapmap];0.82[MEX][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes]
rs6885491	0.95[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes]
rs6895724	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7379147	0.80[AFR][1000 genomes]
rs7379748	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7446232	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs7719560	0.88[EUR][1000 genomes]
rs984509	0.82[JPT][hapmap]
rs991551	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018015	chr5:58889470-59532667	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv537766	chr5:58889470-59532667	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv534614	chr5:58962510-59388525	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv1025856	chr5:59188419-59928852	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv1018431	chr5:59191099-59265363	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1034311	chr5:59193517-59257171	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1016184	chr5:59199687-59251169	Enhancers Weak transcription Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv537768	chr5:59199687-59251169	Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59206400-59278800	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr5:59238400-59242800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr5:59239400-59239800	Bivalent Enhancer	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr5:59239400-59240000	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr5:59239400-59240000	Enhancers	Sigmoid Colon	Sigmoid Colon
6	chr5:59239600-59239800	Active TSS	Duodenum Mucosa	Duodenum
7	chr5:59239600-59240000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr5:59239600-59240000	Enhancers	Adipose Nuclei	Adipose

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