Variant report

Variant	rs680233
Chromosome Location	chr3:120738007-120738008
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1191300	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1191309	0.89[EUR][1000 genomes]
rs1211513	0.81[EUR][1000 genomes]
rs12487633	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13434156	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1523507	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1623244	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1683975	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1688683	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1688684	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17195196	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1795387	0.81[EUR][1000 genomes]
rs1795392	0.86[EUR][1000 genomes]
rs1795414	0.88[AFR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2331521	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2331527	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2686651	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3108752	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34168323	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35345840	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35645356	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3845849	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3856575	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3914744	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4048751	0.85[EUR][1000 genomes]
rs4510329	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4630876	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs470502	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs470738	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs488416	0.89[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs571545	0.91[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs589682	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs590436	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs590663	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs603635	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs603847	0.86[EUR][1000 genomes]
rs60648200	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs619802	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs623175	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638343	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs661160	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs662110	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs663363	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6775508	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6805670	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6807604	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs682394	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs702008	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7615712	0.89[EUR][1000 genomes]
rs7615991	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7616466	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7635903	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7648360	0.88[EUR][1000 genomes]
rs9844667	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9853078	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9860056	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9866746	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9872110	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9883257	0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007557	chr3:119892894-120764353	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv536706	chr3:119892894-120764353	Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv869548	chr3:120320731-121076337	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv916869	chr3:120360281-120973169	Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	esv3523329	chr3:120665311-120748492	Enhancers ZNF genes & repeats Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
6	esv3523331	chr3:120665311-120748492	Enhancers Weak transcription ZNF genes & repeats Active TSS	n/a	n/a	inside rSNPs	diseases
7	nsv1005275	chr3:120700604-121102735	Strong transcription ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
8	nsv998555	chr3:120700604-121348015	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
9	nsv1005551	chr3:120710530-120803826	Strong transcription Enhancers ZNF genes & repeats Weak transcription	TF binding region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases
10	nsv1008441	chr3:120730017-121102735	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
11	nsv536709	chr3:120730017-121102735	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:120737800-120738200	ZNF genes & repeats	Ovary	ovary
2	chr3:120737800-120738600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:120737800-120738600	Enhancers	HMEC	breast
4	chr3:120738000-120738400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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