Variant report

Variant	rs12763390
Chromosome Location	chr10:38084432-38084433
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF248-2	chr10:38083204-38085037	NONHSAT012790

Extended variants
information (count: 122 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs1007133	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10827823	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10827824	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10827825	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10827828	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10827829	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10827831	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11011284	0.80[ASN][1000 genomes]
rs11011287	0.80[ASN][1000 genomes]
rs11011326	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11011328	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11011330	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11011331	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11011334	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11011354	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11011355	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11011363	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11011366	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11011370	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11011372	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11011378	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11011384	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1148287	0.83[ASN][1000 genomes]
rs11492508	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11511139	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11511141	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11516808	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11523837	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11594000	0.80[EUR][1000 genomes]
rs11595684	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11597286	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11599689	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1208633	0.83[ASN][1000 genomes]
rs1208645	0.97[ASN][1000 genomes]
rs1208683	0.98[ASN][1000 genomes]
rs1208695	1.00[ASN][1000 genomes]
rs1208716	1.00[ASN][1000 genomes]
rs1208770	0.98[ASN][1000 genomes]
rs1208779	1.00[ASN][1000 genomes]
rs1209425	0.89[ASN][1000 genomes]
rs1212108	1.00[ASN][1000 genomes]
rs12267169	0.98[ASN][1000 genomes]
rs12357391	0.95[ASN][1000 genomes]
rs12357418	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12358094	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12358108	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12359608	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12360411	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12570939	0.98[ASN][1000 genomes]
rs12570943	0.82[EUR][1000 genomes]
rs12571820	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12763409	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12768391	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12781703	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12782327	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12783666	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12783722	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1322319	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1619266	0.83[ASN][1000 genomes]
rs1742235	0.98[ASN][1000 genomes]
rs1779015	0.98[ASN][1000 genomes]
rs1779150	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2076809	0.95[ASN][1000 genomes]
rs2092993	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2092995	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2103936	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2144845	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2245081	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2295872	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2738186	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2738187	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2738191	0.85[EUR][1000 genomes]
rs2738193	0.85[EUR][1000 genomes]
rs2738219	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2738222	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2749575	0.83[EUR][1000 genomes]
rs2749577	0.83[EUR][1000 genomes]
rs2749587	0.85[EUR][1000 genomes]
rs2749593	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2753877	0.98[ASN][1000 genomes]
rs2753878	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2799495	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2799496	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2799501	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2799505	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2799506	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2799507	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2891586	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34496143	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35215319	0.80[ASN][1000 genomes]
rs35872666	0.93[ASN][1000 genomes]
rs35951606	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35954589	0.80[ASN][1000 genomes]
rs3824584	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3824585	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61857002	0.80[AMR][1000 genomes]
rs61857913	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61858625	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61858626	0.95[ASN][1000 genomes]
rs61858629	0.82[EUR][1000 genomes]
rs61859667	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61859679	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72639533	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9417261	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9417262	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9417263	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9417264	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9417265	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9417267	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9417268	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9418288	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9418289	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9418291	0.97[ASN][1000 genomes]
rs9418294	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9418297	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9418298	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9418299	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[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	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv975812	chr10:37990724-38084639	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 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	chr10:38081200-38092000	Weak transcription	Ovary	ovary
2	chr10:38081200-38092200	Weak transcription	Pancreas	Pancrea
3	chr10:38081200-38097200	Weak transcription	Aorta	Aorta
4	chr10:38082600-38086400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr10:38083200-38086000	ZNF genes & repeats	Liver	Liver
6	chr10:38083400-38084600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
7	chr10:38084000-38090600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr10:38084400-38085200	Weak transcription	Left Ventricle	heart
9	chr10:38084400-38092200	Weak transcription	Skeletal Muscle Female	skeletal muscle

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