Variant report

Variant	rs6836821
Chromosome Location	chr4:96006718-96006719
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:95944191..95946450-chr4:96004489..96006768,3	MCF-7	breast:
2	chr4:95970827..95973009-chr4:96005064..96008963,3	MCF-7	breast:
3	chr4:96004208..96009283-chr4:96010834..96014104,5	MCF-7	breast:
4	chr4:95966448..95968999-chr4:96005215..96007562,2	MCF-7	breast:
5	chr4:95961918..95964431-chr4:96005630..96007431,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138696	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10017056	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13103406	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13103870	0.86[EUR][1000 genomes]
rs13111378	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13117435	0.84[AMR][1000 genomes]
rs13118960	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13127255	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13128282	0.88[EUR][1000 genomes]
rs13131684	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13139927	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13146146	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13152791	0.88[EUR][1000 genomes]
rs1434545	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17344975	0.88[EUR][1000 genomes]
rs17403454	0.85[EUR][1000 genomes]
rs17404327	0.88[EUR][1000 genomes]
rs17411701	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17411860	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1836264	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28601734	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34484245	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34745188	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34755714	0.88[EUR][1000 genomes]
rs34800104	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35653658	0.87[EUR][1000 genomes]
rs35697886	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35888953	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35966830	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4145994	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4699831	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55888287	0.83[EUR][1000 genomes]
rs62316229	0.85[EUR][1000 genomes]
rs62316236	0.88[EUR][1000 genomes]
rs62316238	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62316240	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62316255	0.89[EUR][1000 genomes]
rs6815593	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6815752	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6823424	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6829326	0.85[EUR][1000 genomes]
rs6838546	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6854585	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6855319	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7377902	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7669755	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7682651	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7690400	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7694043	0.87[EUR][1000 genomes]
rs7699056	0.84[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	nsv932216	chr4:95501261-96109807	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1003860	chr4:95507683-96120619	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv492312	chr4:95823124-96128327	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv830011	chr4:95947560-96103934	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv594907	chr4:95975470-96170439	Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96003800-96011600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:96004800-96009200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr4:96005600-96008400	Enhancers	HMEC	breast
4	chr4:96005600-96008800	Flanking Active TSS	Dnd41	blood
5	chr4:96005600-96009000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr4:96005600-96009600	Enhancers	NHEK	skin
7	chr4:96005800-96006800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr4:96005800-96006800	Enhancers	Stomach Mucosa	stomach
9	chr4:96006000-96006800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr4:96006200-96006800	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr4:96006200-96007000	Flanking Active TSS	Fetal Thymus	thymus
12	chr4:96006400-96006800	Flanking Active TSS	Primary T cells from cord blood	blood
13	chr4:96006400-96006800	Enhancers	HUVEC	blood vessel
14	chr4:96006400-96007000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr4:96006400-96007000	Enhancers	Fetal Muscle Leg	muscle
16	chr4:96006400-96007200	Enhancers	Primary T killer memory cells from peripheral blood	blood
17	chr4:96006600-96007000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr4:96006600-96007000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr4:96006600-96007000	Active TSS	Thymus	Thymus
20	chr4:96006600-96007000	Active TSS	A549	lung
21	chr4:96006600-96007800	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr4:96006600-96009200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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