Variant report

Variant	rs28555671
Chromosome Location	chr4:102288236-102288237
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	chr4:102277055..102279316-chr4:102287621..102289577,3	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10006779	0.86[ASN][1000 genomes]
rs10009118	0.86[ASN][1000 genomes]
rs10014486	0.91[ASN][1000 genomes]
rs10029239	0.86[ASN][1000 genomes]
rs11939694	0.86[ASN][1000 genomes]
rs1837771	0.91[ASN][1000 genomes]
rs2119597	0.81[ASN][1000 genomes]
rs2165503	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28360831	0.91[ASN][1000 genomes]
rs28536504	0.91[ASN][1000 genomes]
rs28635484	0.86[AFR][1000 genomes]
rs2866377	0.86[ASN][1000 genomes]
rs2866378	0.86[ASN][1000 genomes]
rs2866379	0.86[ASN][1000 genomes]
rs28694583	0.91[ASN][1000 genomes]
rs28700161	0.86[ASN][1000 genomes]
rs28704863	0.91[ASN][1000 genomes]
rs28720081	0.86[ASN][1000 genomes]
rs28827307	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28888113	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2903268	0.86[ASN][1000 genomes]
rs4394003	0.86[ASN][1000 genomes]
rs55859752	0.91[ASN][1000 genomes]
rs58251277	0.86[ASN][1000 genomes]
rs58296360	0.91[ASN][1000 genomes]
rs6832965	0.86[ASN][1000 genomes]
rs6856511	0.86[ASN][1000 genomes]
rs72918881	0.97[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs72930867	0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7697450	0.91[ASN][1000 genomes]
rs9884169	0.86[ASN][1000 genomes]
rs9884170	0.86[ASN][1000 genomes]
rs9884171	0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs9884173	0.86[ASN][1000 genomes]
rs9884606	0.86[ASN][1000 genomes]
rs9995557	0.86[ASN][1000 genomes]
rs9996429	0.86[ASN][1000 genomes]
rs9999708	0.86[ASN][1000 genomes]

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	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1011351	chr4:102056024-102450302	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
7	nsv879676	chr4:102202285-102340930	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102287000-102288800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr4:102287000-102289400	Enhancers	NHDF-Ad	bronchial
3	chr4:102287000-102289400	Enhancers	Osteobl	bone
4	chr4:102287000-102289600	Enhancers	NHEK	skin
5	chr4:102287200-102289200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr4:102287200-102289200	Enhancers	NHLF	lung
7	chr4:102287200-102289400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr4:102287200-102289400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr4:102287200-102289400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr4:102287200-102289800	Enhancers	HMEC	breast
11	chr4:102287400-102289200	Enhancers	Muscle Satellite Cultured Cells	--
12	chr4:102287400-102289400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr4:102287600-102289600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr4:102288200-102289200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr4:102288200-102289200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr4:102288200-102289200	Enhancers	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links