Variant report

Variant	rs60245874
Chromosome Location	chr6:161399539-161399540
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	chr6:161388337..161390825-chr6:161398571..161400155,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs56928446	1.00[AMR][1000 genomes]
rs57680325	1.00[AMR][1000 genomes]
rs57709986	1.00[AMR][1000 genomes]
rs58542428	1.00[AMR][1000 genomes]
rs59318594	1.00[AMR][1000 genomes]
rs59706061	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60415197	1.00[AMR][1000 genomes]
rs60974336	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61548712	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6935947	1.00[AMR][1000 genomes]
rs7765098	1.00[AMR][1000 genomes]
rs9458083	1.00[AMR][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	esv2422347	chr6:161211171-161442377	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1030045	chr6:161359075-161562255	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv1023982	chr6:161382188-161549831	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161396400-161399600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr6:161396400-161399600	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr6:161396600-161400000	Weak transcription	Fetal Lung	lung
4	chr6:161396800-161400000	Weak transcription	Fetal Stomach	stomach
5	chr6:161397400-161406800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:161399000-161399600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:161399000-161399600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:161399000-161399600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:161399000-161399800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:161399000-161400400	Enhancers	Muscle Satellite Cultured Cells	--
11	chr6:161399000-161401000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr6:161399200-161399600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr6:161399200-161399600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:161399200-161399600	Enhancers	NH-A	brain
15	chr6:161399200-161399600	Flanking Active TSS	Osteobl	bone
16	chr6:161399200-161400200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:161399200-161400400	Enhancers	Ovary	ovary
18	chr6:161399200-161400400	Enhancers	HSMM	muscle
19	chr6:161399200-161401000	Enhancers	HSMMtube	muscle
20	chr6:161399400-161399800	Weak transcription	Colon Smooth Muscle	Colon
21	chr6:161399400-161399800	Enhancers	HMEC	breast
22	chr6:161399400-161400000	Enhancers	Rectal Smooth Muscle	rectum
23	chr6:161399400-161400200	Flanking Active TSS	NHDF-Ad	bronchial
24	chr6:161399400-161404200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links