Variant report

Variant	rs4699152
Chromosome Location	chr4:106012873-106012874
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	chr4:106012088..106015221-chr4:106066967..106069963,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168769	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10856976	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1156440	0.91[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11722422	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11736838	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12509636	0.82[CHD][hapmap]
rs12643081	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1971640	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2214406	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4699153	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs56704181	0.83[EUR][1000 genomes]
rs6533177	0.83[ASN][1000 genomes]
rs6811919	1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6813396	0.91[CEU][hapmap];1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6820799	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs723534	0.83[ASN][1000 genomes]
rs764274	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs764275	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7654896	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[ASN][1000 genomes]
rs7668143	0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs968042	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9994426	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9996395	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461609	chr4:105869548-106366209	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv470063	chr4:105869548-106366209	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv595007	chr4:105869548-106366209	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv830024	chr4:105884350-106037816	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv830025	chr4:105988876-106137946	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106009800-106013400	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:106010000-106014000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr4:106010200-106013400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr4:106010200-106013400	Weak transcription	HMEC	breast
5	chr4:106010200-106013400	Weak transcription	NH-A	brain
6	chr4:106010200-106013800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr4:106010400-106013400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr4:106010400-106013400	Weak transcription	NHDF-Ad	bronchial
9	chr4:106010400-106013400	Weak transcription	Osteobl	bone
10	chr4:106010400-106014000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr4:106010600-106013000	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr4:106010600-106013400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr4:106010800-106013400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr4:106011000-106013400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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