Variant report

Variant	rs10058672
Chromosome Location	chr5:58386104-58386105
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10037978	0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10043404	0.87[AMR][1000 genomes]
rs10045258	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10052007	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs10070138	0.81[YRI][hapmap]
rs10074406	0.89[AMR][1000 genomes]
rs10078108	0.87[AMR][1000 genomes]
rs10079826	0.87[AMR][1000 genomes]
rs13358675	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13359707	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13361668	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs13362242	0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs16889181	0.87[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16889190	0.94[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28703107	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28735903	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56356290	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58178219	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59490646	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60419833	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6872107	0.80[YRI][hapmap];0.85[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6890598	0.87[YRI][hapmap];0.85[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73093303	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73093323	0.87[AMR][1000 genomes]
rs73093324	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7700296	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7712076	0.82[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7719347	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9292190	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv830313	chr5:58273724-58421098	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58376400-58388200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr5:58376400-58389200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr5:58376400-58390400	Weak transcription	Hela-S3	cervix
4	chr5:58376600-58386200	Weak transcription	Colon Smooth Muscle	Colon
5	chr5:58376600-58387000	Weak transcription	Rectal Smooth Muscle	rectum
6	chr5:58378200-58391800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr5:58384400-58387800	Weak transcription	NHEK	skin
8	chr5:58385600-58387800	Enhancers	Fetal Lung	lung
9	chr5:58385800-58386400	Enhancers	Pancreatic Islets	Pancreatic Islet
10	chr5:58385800-58387200	Enhancers	Fetal Heart	heart
11	chr5:58386000-58387600	Flanking Active TSS	A549	lung

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