Variant report

Variant	rs12496883
Chromosome Location	chr3:75151289-75151290
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10460949	0.80[EUR][1000 genomes]
rs12054293	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12054432	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12171270	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12486094	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12492862	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12494321	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12629483	0.87[ASN][1000 genomes]
rs12632116	0.87[ASN][1000 genomes]
rs12632660	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12636203	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12636209	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13065802	0.81[EUR][1000 genomes]
rs4073454	0.81[EUR][1000 genomes]
rs4076158	0.81[EUR][1000 genomes]
rs4076688	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4078307	0.80[EUR][1000 genomes]
rs4234198	0.84[EUR][1000 genomes]
rs4298078	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4349537	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4356853	0.81[ASN][1000 genomes]
rs4361306	0.84[EUR][1000 genomes]
rs4368539	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4449358	0.84[EUR][1000 genomes]
rs4544657	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4589972	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4607148	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4635750	0.81[ASN][1000 genomes]
rs4676991	0.88[EUR][1000 genomes]
rs4676992	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4677447	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4677449	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4677458	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4677473	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4677474	0.90[EUR][1000 genomes]
rs5009222	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57194478	0.90[EUR][1000 genomes]
rs59643911	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs59715156	0.90[EUR][1000 genomes]
rs62258901	0.81[ASN][1000 genomes]
rs62260995	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62260996	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62261003	0.82[EUR][1000 genomes]
rs62261005	0.84[EUR][1000 genomes]
rs62261006	0.80[EUR][1000 genomes]
rs62261007	0.84[EUR][1000 genomes]
rs62261008	0.80[EUR][1000 genomes]
rs62261009	0.80[EUR][1000 genomes]
rs62261010	0.84[EUR][1000 genomes]
rs6549685	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6549689	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6549700	0.89[EUR][1000 genomes]
rs6761963	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6775067	0.80[EUR][1000 genomes]
rs6777388	0.91[EUR][1000 genomes]
rs6796018	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6800028	0.91[EUR][1000 genomes]
rs72628656	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7429585	0.89[EUR][1000 genomes]
rs7429678	0.86[EUR][1000 genomes]
rs7430106	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7431394	0.86[EUR][1000 genomes]
rs7432426	0.83[EUR][1000 genomes]
rs7616253	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7648701	0.81[EUR][1000 genomes]
rs7651120	0.84[EUR][1000 genomes]
rs9310311	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9810161	0.86[EUR][1000 genomes]
rs9815881	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9816018	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9833132	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9835668	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9845814	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9850353	0.87[ASN][1000 genomes]
rs9863946	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9865292	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9868696	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9869924	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9877977	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9882460	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529994	chr3:74720752-75471887	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv916594	chr3:74943399-75540161	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
3	esv1851336	chr3:74970564-75280989	ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1005139	chr3:75027834-75168557	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv534344	chr3:75028665-75164716	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv834736	chr3:75083055-75271458	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
7	esv3390881	chr3:75140311-75160858	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	n/a
8	esv3429486	chr3:75140311-75163908	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription	n/a	n/a	inside rSNPs	n/a
9	esv3391763	chr3:75140311-75166610	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:75150400-75151400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:75150400-75151400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:75150400-75151600	Enhancers	H1 Cell Line	embryonic stem cell
4	chr3:75150400-75151600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:75150600-75151400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:75150600-75151400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr3:75150600-75151400	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr3:75150600-75151400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr3:75150600-75151600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr3:75150600-75151600	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr3:75151000-75151400	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
12	chr3:75151000-75151400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
13	chr3:75151000-75151400	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
14	chr3:75151000-75151400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:75151000-75151400	Active TSS	Brain Hippocampus Middle	brain
16	chr3:75151000-75151400	Enhancers	Fetal Intestine Large	intestine
17	chr3:75151000-75151400	Enhancers	Fetal Intestine Small	intestine
18	chr3:75151200-75151400	Active TSS	H9 Cell Line	embryonic stem cell
19	chr3:75151200-75151600	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr3:75151200-75151600	Enhancers	iPS-18 Cell Line	embryonic stem cell

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