Variant report

Variant	rs3094069
Chromosome Location	chr6:30251391-30251392
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11158	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1573296	0.85[EUR][1000 genomes]
rs1970	0.85[EUR][1000 genomes]
rs2106072	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2157678	0.85[EUR][1000 genomes]
rs2517609	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2517617	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2517622	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2523712	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2523729	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2523978	0.89[AMR][1000 genomes]
rs2844777	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2844789	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3094054	0.95[EUR][1000 genomes]
rs3094056	0.95[EUR][1000 genomes]
rs3094057	0.95[EUR][1000 genomes]
rs3094058	0.95[EUR][1000 genomes]
rs3094064	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3094066	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3094067	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3094078	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3094620	0.95[EUR][1000 genomes]
rs3094621	0.84[EUR][1000 genomes]
rs3094622	0.84[EUR][1000 genomes]
rs3094624	0.95[EUR][1000 genomes]
rs3094625	0.95[EUR][1000 genomes]
rs3094628	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3129815	0.95[EUR][1000 genomes]
rs3129830	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3130350	0.95[EUR][1000 genomes]
rs3130351	0.95[EUR][1000 genomes]
rs3130352	0.95[EUR][1000 genomes]
rs3130353	0.95[EUR][1000 genomes]
rs3130355	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs3130363	0.82[EUR][1000 genomes]
rs3130364	0.95[EUR][1000 genomes]
rs3130377	0.95[EUR][1000 genomes]
rs3130380	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3130399	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3132647	0.95[EUR][1000 genomes]
rs3132648	0.95[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv884062	chr6:30237454-30256838	ZNF genes & repeats Weak transcription Enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3094069	HLA-C	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30247400-30253000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:30247600-30262400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:30248400-30251600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
4	chr6:30248400-30253400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:30248400-30255600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr6:30248600-30254000	ZNF genes & repeats	Liver	Liver
7	chr6:30248800-30251400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
8	chr6:30250400-30252600	ZNF genes & repeats	Adipose Nuclei	Adipose
9	chr6:30250600-30252200	ZNF genes & repeats	Fetal Brain Female	brain
10	chr6:30250600-30252800	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
11	chr6:30251200-30252000	ZNF genes & repeats	Aorta	Aorta
12	chr6:30251200-30252400	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
13	chr6:30251200-30252400	ZNF genes & repeats	Brain Anterior Caudate	brain
14	chr6:30251200-30252600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
15	chr6:30251200-30253000	ZNF genes & repeats	Brain Hippocampus Middle	brain

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