Variant report

Variant	rs6683756
Chromosome Location	chr1:119907472-119907473
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	E2F4	chr1:119907394-119907578	MCF10A-Er-Src	breast:	n/a	n/a
2	FOS	chr1:119907324-119907561	MCF10A-Er-Src	breast:	n/a	n/a
3	FOXA1	chr1:119907127-119907513	HepG2	liver:	n/a	n/a
4	FOXA1	chr1:119907145-119907506	HepG2	liver:	n/a	n/a
5	FOS	chr1:119907266-119907620	MCF10A-Er-Src	breast:	n/a	n/a
6	STAT3	chr1:119907348-119907548	MCF10A-Er-Src	breast:	n/a	n/a
7	FOS	chr1:119907266-119907631	MCF10A-Er-Src	breast:	n/a	n/a
8	POLR2A	chr1:119907319-119907519	MCF10A-Er-Src	breast:	n/a	n/a
9	FOS	chr1:119907256-119907584	MCF10A-Er-Src	breast:	n/a	n/a
10	FOXA1	chr1:119907044-119907591	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
HAO2-IT1	TF binding region
HAO2	TF binding region

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10489812	1.00[CHB][hapmap]
rs10494225	1.00[CHB][hapmap]
rs11580104	1.00[CHB][hapmap]
rs1325751	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1341015	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs1417607	1.00[CHB][hapmap]
rs1417608	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs1856886	1.00[CHB][hapmap]
rs2275608	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs3753260	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs3753266	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs5003333	1.00[CHB][hapmap]
rs57519238	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58288358	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59401382	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59944806	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72994375	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72994382	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72994399	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7514283	1.00[CHB][hapmap];0.87[CHD][hapmap]
rs7529983	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932014	chr1:119476480-120471049	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	86 gene(s)	inside rSNPs	diseases
2	nsv917091	chr1:119688975-120023222	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	esv34089	chr1:119752112-120072961	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv1000391	chr1:119837978-120287056	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	nsv535077	chr1:119837978-120287056	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
6	esv2761649	chr1:119840645-119925936	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv1004662	chr1:119847447-120154798	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:119903400-119911800	Enhancers	HepG2	liver
2	chr1:119904400-119909000	Weak transcription	GM12878-XiMat	blood
3	chr1:119906200-119908600	Weak transcription	Liver	Liver
4	chr1:119906200-119910400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr1:119906400-119910000	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr1:119906400-119914400	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr1:119906800-119908000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr1:119907000-119907800	Enhancers	Muscle Satellite Cultured Cells	--
9	chr1:119907000-119908000	Enhancers	NHEK	skin
10	chr1:119907000-119908200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr1:119907000-119908200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr1:119907000-119908200	Enhancers	HMEC	breast
13	chr1:119907200-119907600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr1:119907200-119907800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr1:119907200-119907800	Enhancers	HSMM	muscle
16	chr1:119907200-119907800	Enhancers	NHDF-Ad	bronchial
17	chr1:119907200-119908000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr1:119907200-119908200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr1:119907200-119908800	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr1:119907400-119908200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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