Variant report

Variant	rs7172299
Chromosome Location	chr15:41427720-41427721
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11070315	1.00[JPT][hapmap]
rs12324568	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12912887	0.88[JPT][hapmap]
rs16952331	0.85[CHB][hapmap];0.81[EUR][1000 genomes]
rs16971562	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16971576	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16971647	0.82[EUR][1000 genomes]
rs16971651	0.82[EUR][1000 genomes]
rs16971653	0.82[EUR][1000 genomes]
rs16971654	0.82[EUR][1000 genomes]
rs1869908	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs2083238	0.86[EUR][1000 genomes]
rs2090826	0.82[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs2118739	0.86[EUR][1000 genomes]
rs2305656	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs2412607	0.82[EUR][1000 genomes]
rs2899002	0.84[JPT][hapmap]
rs55787465	0.82[EUR][1000 genomes]
rs55952963	0.82[EUR][1000 genomes]
rs56262456	0.82[EUR][1000 genomes]
rs56815966	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs57009745	0.82[EUR][1000 genomes]
rs57896923	0.84[EUR][1000 genomes]
rs58060180	0.82[EUR][1000 genomes]
rs58322837	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58436082	0.82[EUR][1000 genomes]
rs58851405	0.82[EUR][1000 genomes]
rs59441380	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59500750	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60789744	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7165551	0.82[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs7166182	0.82[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs7168706	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7173545	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73394302	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs74012251	0.84[EUR][1000 genomes]
rs74012252	0.84[EUR][1000 genomes]
rs8025660	0.82[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.86[EUR][1000 genomes]
rs8025916	0.82[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs8026570	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8029385	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8029694	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8030683	0.82[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs8030706	0.82[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs8030712	0.82[CEU][hapmap];0.84[CHB][hapmap];0.82[EUR][1000 genomes]
rs8030732	0.82[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs8030954	0.82[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs8031542	0.82[CEU][hapmap];0.82[EUR][1000 genomes]
rs8038575	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8039060	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8040375	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9672272	0.80[EUR][1000 genomes]
rs9672309	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9745300	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9796	1.00[JPT][hapmap]

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	nsv569229	chr15:41361138-41483682	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
2	nsv904107	chr15:41361138-41493013	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	nsv569230	chr15:41384649-41483682	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	nsv904108	chr15:41384649-41486990	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
5	nsv904109	chr15:41410705-41481254	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv457120	chr15:41410705-41546631	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers 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	17 gene(s)	inside rSNPs	diseases
7	nsv569231	chr15:41410705-41546631	Weak transcription ZNF genes & repeats Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
8	esv10980	chr15:41423683-41445889	Weak transcription Flanking Active TSS Enhancers Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41424000-41431000	Weak transcription	Stomach Mucosa	stomach
2	chr15:41427400-41428200	Enhancers	HepG2	liver
3	chr15:41427600-41427800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr15:41427600-41427800	Enhancers	Hela-S3	cervix
5	chr15:41427600-41428200	Enhancers	NHEK	skin

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