Variant report

Variant	rs10858421
Chromosome Location	chr12:86774683-86774684
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10745415	1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10776954	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10776958	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10776960	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10776967	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10858409	0.84[EUR][1000 genomes]
rs10858411	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10858417	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10858420	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10858429	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11103946	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1389292	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1389294	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1389295	0.87[EUR][1000 genomes]
rs1493413	0.91[EUR][1000 genomes]
rs1493414	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1493417	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1493418	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1532263	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1922745	1.00[YRI][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1994863	0.85[EUR][1000 genomes]
rs2406120	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2406121	0.90[EUR][1000 genomes]
rs2406142	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2406156	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2452803	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2452805	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2452808	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2465142	0.87[EUR][1000 genomes]
rs2465145	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2465148	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2471567	0.87[EUR][1000 genomes]
rs4300451	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4329741	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4842512	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6538043	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6538044	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7303642	0.90[EUR][1000 genomes]
rs7316265	0.82[EUR][1000 genomes]
rs7953494	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7954833	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7954883	1.00[YRI][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7963957	0.84[EUR][1000 genomes]
rs7966656	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7975314	1.00[YRI][hapmap]
rs839107	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049179	chr12:86056376-86799188	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1037003	chr12:86610040-86798121	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1053234	chr12:86701070-86774957	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	esv2754127	chr12:86723232-87576932	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1041126	chr12:86736601-86774957	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription	n/a	n/a	inside rSNPs	diseases
6	nsv1051494	chr12:86736601-86776021	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10858421	MGAT4C	cis	Heart Left Ventricle	GTEx

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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