Variant report

Variant	rs3798484
Chromosome Location	chr6:100908180-100908181
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:100906855..100909524-chr6:100935004..100937170,2	MCF-7	breast:
2	chr6:100907831..100909801-chr6:100918117..100920075,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs17060629	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17060659	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs189557	0.95[AFR][1000 genomes]
rs241814	0.96[YRI][hapmap];0.83[AFR][1000 genomes]
rs58927095	0.84[ASN][1000 genomes]
rs6907007	0.84[ASN][1000 genomes]
rs6907169	0.85[YRI][hapmap]
rs6934173	0.84[ASN][1000 genomes]
rs6942018	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.84[ASN][1000 genomes]
rs7755091	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755275	0.84[ASN][1000 genomes]
rs7766553	1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9322060	0.84[ASN][1000 genomes]
rs9485075	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9485082	0.89[AMR][1000 genomes]
rs9485089	0.84[ASN][1000 genomes]
rs9485091	0.84[ASN][1000 genomes]
rs9485097	0.84[ASN][1000 genomes]
rs9485098	0.84[ASN][1000 genomes]
rs9497479	1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9497547	0.91[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs9497562	0.84[ASN][1000 genomes]
rs9497585	0.82[AFR][1000 genomes];0.84[ASN][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	nsv949535	chr6:100740293-101469052	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1028122	chr6:100774245-100964347	Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1023710	chr6:100810738-101001115	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv538388	chr6:100810738-101001115	Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv515895	chr6:100868779-100910798	Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
6	nsv533053	chr6:100883636-100911512	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:100897400-100908600	Weak transcription	HSMMtube	muscle
2	chr6:100902000-100913600	Active TSS	Psoas Muscle	Psoas
3	chr6:100906400-100908400	Enhancers	Muscle Satellite Cultured Cells	--
4	chr6:100906600-100914200	Bivalent/Poised TSS	Fetal Kidney	kidney
5	chr6:100906800-100908600	Weak transcription	Pancreas	Pancrea
6	chr6:100906800-100914400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:100906800-100914600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:100907200-100908400	Weak transcription	Spleen	Spleen
9	chr6:100907200-100909400	Active TSS	Skeletal Muscle Female	skeletal muscle
10	chr6:100907400-100913600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr6:100908000-100908200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:100908000-100913600	Bivalent/Poised TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:100908000-100913800	Bivalent/Poised TSS	NHDF-Ad	bronchial
14	chr6:100908000-100914800	Active TSS	Pancreatic Islets	Pancreatic Islet

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