Variant report

Variant	rs236254
Chromosome Location	chr6:79106046-79106047
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10455116	0.89[ASN][1000 genomes]
rs12199172	0.82[ASN][1000 genomes]
rs12215169	0.82[ASN][1000 genomes]
rs13214425	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1349662	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1452529	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1452530	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1452531	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1452533	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs145675	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1597835	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs171027	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1901613	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2123307	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2206831	0.82[ASN][1000 genomes]
rs2206832	0.89[ASN][1000 genomes]
rs2223722	0.82[ASN][1000 genomes]
rs2262380	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2262381	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2321307	0.90[EUR][1000 genomes]
rs235452	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs235453	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs235454	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs235455	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs235456	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs236246	0.90[EUR][1000 genomes]
rs236247	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs236248	0.89[EUR][1000 genomes]
rs236250	0.90[EUR][1000 genomes]
rs236251	0.91[EUR][1000 genomes]
rs236252	0.91[EUR][1000 genomes]
rs236253	0.91[EUR][1000 genomes]
rs236255	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs236258	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs236259	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs236260	0.89[EUR][1000 genomes]
rs236261	0.90[EUR][1000 genomes]
rs2444196	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2444197	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2444202	0.94[ASN][1000 genomes]
rs2493224	0.97[ASN][1000 genomes]
rs2493225	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2493226	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2493228	0.97[ASN][1000 genomes]
rs2493229	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2493233	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2493237	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4706703	0.89[ASN][1000 genomes]
rs56047396	0.89[ASN][1000 genomes]
rs62426486	0.93[ASN][1000 genomes]
rs62426487	0.93[ASN][1000 genomes]
rs7752809	0.82[ASN][1000 genomes]
rs926654	0.89[ASN][1000 genomes]
rs9448394	0.90[EUR][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	esv2758064	chr6:78795880-79193468	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
2	esv2759447	chr6:78795880-79193468	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv886235	chr6:78861808-79369972	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1018006	chr6:79003806-79228498	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv604011	chr6:79042990-79455282	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs236254	HMGN3	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79105200-79107000	Enhancers	Fetal Intestine Small	intestine
2	chr6:79105600-79106200	Enhancers	Adipose Nuclei	Adipose

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