Variant report

Variant	rs60563254
Chromosome Location	chr5:15824361-15824362
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:15105969..15106817-chr5:15824201..15824721,2	MCF-7	breast:
2	chr5:15463233..15463955-chr5:15824094..15824960,2	MCF-7	breast:
3	chr5:15105600..15106389-chr5:15824138..15824978,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs16867720	1.00[AMR][1000 genomes]
rs60782876	1.00[AMR][1000 genomes]
rs6897069	1.00[AMR][1000 genomes]
rs73752326	1.00[AMR][1000 genomes]
rs73752327	1.00[AMR][1000 genomes]
rs73752328	0.83[AFR][1000 genomes]
rs73752329	0.83[AFR][1000 genomes]
rs73752334	0.83[AFR][1000 genomes]
rs73752337	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv516929	chr5:15087791-15870300	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1023068	chr5:15095221-15863583	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv869040	chr5:15097602-15866117	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv530222	chr5:15151662-15851485	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv1028089	chr5:15636285-15883910	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv537676	chr5:15636285-15883910	Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1024248	chr5:15638067-15863583	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv537677	chr5:15638067-15863583	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv880755	chr5:15670377-15938553	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
10	esv2763894	chr5:15714022-15863332	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1031483	chr5:15738485-15926083	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15816400-15834800	Weak transcription	Ovary	ovary
2	chr5:15819600-15824600	Weak transcription	Fetal Lung	lung
3	chr5:15821000-15824800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr5:15821000-15830800	Weak transcription	Right Ventricle	heart
5	chr5:15821200-15830200	Weak transcription	Left Ventricle	heart
6	chr5:15821400-15824400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr5:15821400-15825600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr5:15822000-15824400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr5:15822000-15824400	Weak transcription	HUVEC	blood vessel
10	chr5:15822200-15824400	Weak transcription	NHLF	lung
11	chr5:15822200-15824600	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr5:15822600-15824800	Weak transcription	NHDF-Ad	bronchial
13	chr5:15822800-15836400	Enhancers	Fetal Heart	heart
14	chr5:15823000-15831200	Weak transcription	Fetal Stomach	stomach
15	chr5:15823400-15824400	Enhancers	Osteobl	bone
16	chr5:15823600-15824600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr5:15823600-15825000	Enhancers	Brain Hippocampus Middle	brain
18	chr5:15823600-15825200	Enhancers	Brain Substantia Nigra	brain
19	chr5:15823800-15824400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr5:15823800-15824800	Enhancers	Brain Anterior Caudate	brain
21	chr5:15823800-15824800	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr5:15823800-15824800	Enhancers	NH-A	brain
23	chr5:15824000-15824800	Weak transcription	Brain Angular Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links