Variant report

Variant	rs17712761
Chromosome Location	chr15:53778948-53778949
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:53764621..53766901-chr15:53777731..53780214,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1009651	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10152470	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11070986	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11630682	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11630747	0.81[EUR][1000 genomes]
rs1516425	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17661801	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1906414	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1948128	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1962425	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2129772	0.84[AMR][1000 genomes]
rs2171478	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2414238	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2414240	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2414241	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs36074695	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4572330	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs540546	0.81[EUR][1000 genomes]
rs546942	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs563716	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs608518	0.84[AMR][1000 genomes]
rs72745144	0.81[EUR][1000 genomes]
rs952993	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]

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	nsv833008	chr15:53630471-53780618	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv904223	chr15:53665247-54340070	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv904224	chr15:53668018-54210677	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1049319	chr15:53671945-53785267	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv1050374	chr15:53674726-53785267	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv1052235	chr15:53677524-54618723	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv542388	chr15:53677524-54618723	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv1040216	chr15:53743780-53851679	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv833009	chr15:53752901-53935303	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv1042604	chr15:53760504-53785267	Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv519399	chr15:53763360-53786291	Active TSS Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	esv2757601	chr15:53769721-53785483	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	esv2760032	chr15:53769721-53785483	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv1052280	chr15:53770847-53784888	Active TSS Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv1051443	chr15:53770970-53784888	Flanking Active TSS Weak transcription Enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53777600-53779400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:53778800-53779800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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