Variant report

Variant	rs9474790
Chromosome Location	chr6:54155610-54155611
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs12055520	1.00[JPT][hapmap]
rs12175696	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28523853	0.91[AFR][1000 genomes]
rs35506389	0.87[AMR][1000 genomes]
rs55888793	0.87[AMR][1000 genomes]
rs6902373	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6928234	1.00[YRI][hapmap]
rs6936714	0.87[AFR][1000 genomes]
rs6940326	1.00[YRI][hapmap]
rs7743272	0.93[YRI][hapmap]
rs9296746	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9296748	0.89[AFR][1000 genomes]
rs9296749	0.83[AFR][1000 genomes]
rs9349701	1.00[JPT][hapmap];0.87[AMR][1000 genomes]
rs9357792	1.00[JPT][hapmap]
rs9357796	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9357797	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9357798	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9357799	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9367555	0.87[AMR][1000 genomes]
rs9367557	1.00[JPT][hapmap];0.87[AMR][1000 genomes]
rs9367560	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9370272	1.00[JPT][hapmap]
rs9370273	1.00[JPT][hapmap]
rs9370275	1.00[JPT][hapmap]
rs9370277	0.87[AMR][1000 genomes]
rs9370278	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9370280	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9370287	0.92[YRI][hapmap]
rs9382310	1.00[JPT][hapmap]
rs9382312	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9382317	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9382320	1.00[ASN][1000 genomes]
rs9395912	1.00[JPT][hapmap]
rs9395913	1.00[JPT][hapmap]
rs9395925	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9395932	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9464050	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs9464053	1.00[YRI][hapmap]
rs9474786	0.91[AFR][1000 genomes]
rs9474787	0.83[AFR][1000 genomes]
rs9474788	0.83[AFR][1000 genomes]
rs9474789	0.81[AFR][1000 genomes]
rs9474798	1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs9474812	0.85[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067663	chr6:53796341-54449718	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv529158	chr6:53796341-54449718	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv885888	chr6:54132353-54266032	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54151400-54155800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:54151400-54155800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr6:54151400-54156000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr6:54152600-54157400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr6:54152800-54156000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:54153200-54157600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:54153800-54160000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:54154400-54155800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr6:54154400-54156000	Enhancers	HMEC	breast
10	chr6:54154600-54155800	Enhancers	NHEK	skin
11	chr6:54154800-54157600	Enhancers	HUVEC	blood vessel
12	chr6:54154800-54157800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:54155000-54156000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:54155400-54155800	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr6:54155400-54156200	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr6:54155400-54156800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:54155400-54156800	Enhancers	HSMM	muscle
18	chr6:54155400-54156800	Enhancers	HSMMtube	muscle
19	chr6:54155400-54156800	Enhancers	NH-A	brain
20	chr6:54155400-54157000	Enhancers	NHLF	lung
21	chr6:54155400-54157200	Enhancers	NHDF-Ad	bronchial
22	chr6:54155400-54157400	Enhancers	Muscle Satellite Cultured Cells	--
23	chr6:54155600-54157000	Enhancers	Osteobl	bone

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