Variant report

Variant	rs7487877
Chromosome Location	chr12:46820519-46820520
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10748448	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10748450	0.86[EUR][1000 genomes]
rs10785627	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10785628	0.85[EUR][1000 genomes]
rs10785629	0.86[EUR][1000 genomes]
rs10880966	0.87[AMR][1000 genomes]
rs10880967	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10880968	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10880969	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10880970	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10880971	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10880973	0.86[EUR][1000 genomes]
rs11183478	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11183479	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11183483	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11183484	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11183486	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11183488	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1125909	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11561535	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12099669	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12298616	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12314541	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12319162	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12813763	0.91[AMR][1000 genomes]
rs12814298	0.85[AMR][1000 genomes]
rs12814341	0.91[AMR][1000 genomes]
rs12822345	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12824565	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12832425	0.91[AMR][1000 genomes]
rs12832777	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1472178	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1472179	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1492895	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2131371	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2220727	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2408497	0.86[AMR][1000 genomes]
rs2408498	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2897951	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3936214	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4072304	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4076247	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4077707	0.84[EUR][1000 genomes]
rs4077708	0.85[EUR][1000 genomes]
rs4258438	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4427617	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4768118	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4768119	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4768121	0.88[AMR][1000 genomes]
rs4768122	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4768123	0.84[EUR][1000 genomes]
rs4768709	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4768710	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4768711	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4768712	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4768713	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4768714	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4768715	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4768716	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4768717	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4768718	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4768719	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4768723	0.85[EUR][1000 genomes]
rs4768724	0.86[EUR][1000 genomes]
rs4768725	0.86[EUR][1000 genomes]
rs6582641	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6582642	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6582643	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6582645	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6582646	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6582657	0.86[EUR][1000 genomes]
rs6582658	0.86[EUR][1000 genomes]
rs7134289	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7301001	0.88[AMR][1000 genomes]
rs7311504	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7312259	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7485580	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7485599	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7486495	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7486532	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7486580	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7486596	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7487828	0.90[AMR][1000 genomes]
rs7488450	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7489242	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7959731	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7968897	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7976280	0.86[AMR][1000 genomes]
rs9669404	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9971879	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832398	chr12:46611692-46825530	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	181 gene(s)	inside rSNPs	diseases
2	esv1842882	chr12:46691487-47009428	Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Genic enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	149 gene(s)	inside rSNPs	diseases
3	nsv1049525	chr12:46721742-47264172	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
4	nsv541486	chr12:46721742-47264172	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
5	esv3429861	chr12:46762813-46988789	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	145 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:46809200-46820800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr12:46810000-46823600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr12:46813000-46820800	Weak transcription	Primary B cells from cord blood	blood
4	chr12:46819800-46821600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
5	chr12:46820000-46830600	Weak transcription	Ovary	ovary
6	chr12:46820200-46821000	ZNF genes & repeats	Fetal Intestine Small	intestine
7	chr12:46820200-46824000	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr12:46820400-46821000	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr12:46820400-46825000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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