Variant report

Variant	rs13175940
Chromosome Location	chr5:61293994-61293995
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:61290242..61292667-chr5:61292946..61295835,2	MCF-7	breast:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10058486	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10062059	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10214027	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13177362	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13178972	0.96[EUR][1000 genomes]
rs13180268	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1445884	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1445886	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1816097	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1816098	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1820157	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1820159	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1833868	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1833871	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1862587	0.82[EUR][1000 genomes]
rs1972650	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1972651	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2032875	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2032876	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2100035	0.86[EUR][1000 genomes]
rs2166371	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2342989	0.98[ASN][1000 genomes]
rs2342990	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2342991	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3843448	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4235489	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4273560	0.98[ASN][1000 genomes]
rs4273561	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4301180	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4337809	0.98[ASN][1000 genomes]
rs4407583	0.82[EUR][1000 genomes]
rs4470716	0.80[EUR][1000 genomes]
rs4699996	0.96[EUR][1000 genomes]
rs4699997	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4699999	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4700454	0.87[EUR][1000 genomes]
rs4700455	0.96[EUR][1000 genomes]
rs4700456	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4700457	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4700463	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6449573	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6449577	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6869741	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6874917	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6896815	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7712508	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7726251	0.83[EUR][1000 genomes]
rs7734412	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7736993	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs867492	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs889275	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs918616	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9291745	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs968159	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9885479	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020693	chr5:61098865-61357032	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv881723	chr5:61183375-61311715	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv881724	chr5:61257159-61318424	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv1024090	chr5:61258759-61921150	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	nsv881725	chr5:61265820-61376320	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv508363	chr5:61287078-61362885	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv2619200	chr5:61292891-61294521	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
8	esv3412717	chr5:61292945-61294943	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
9	esv7742	chr5:61293391-61294151	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
10	esv2046885	chr5:61293440-61294150	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
11	esv3521922	chr5:61293519-61294040	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
12	esv3469270	chr5:61293530-61294037	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
13	esv3521920	chr5:61293538-61294063	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
14	esv3469272	chr5:61293557-61294028	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
15	esv3469269	chr5:61293561-61294026	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
16	esv3521921	chr5:61293574-61294008	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
17	esv3521923	chr5:61293583-61294014	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
18	esv3469273	chr5:61293641-61293995	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:61288000-61294800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:61292600-61295400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr5:61293200-61294200	Weak transcription	Fetal Intestine Large	intestine
4	chr5:61293400-61294600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr5:61293400-61296200	Weak transcription	Fetal Intestine Small	intestine

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