Variant report

Variant	rs17062823
Chromosome Location	chr6:134081394-134081395
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:134076418..134078236-chr6:134080183..134082934,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC2A12-1	chr6:134081323-134081398	ENSG00000234554
2	lnc-SLC2A12-2	chr6:134081323-134081398	ENSG00000227954.2
3	lnc-SLC2A12-2	chr6:134081323-134081398	NR_109982
4	lnc-SLC2A12-2	chr6:134081323-134081398	ENSG00000227954.2

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10457609	0.83[EUR][1000 genomes]
rs10872410	0.86[EUR][1000 genomes]
rs10872411	0.91[EUR][1000 genomes]
rs12190055	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12191306	0.83[EUR][1000 genomes]
rs12193686	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12194247	0.97[EUR][1000 genomes]
rs12194886	0.91[EUR][1000 genomes]
rs12195892	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12196164	0.88[EUR][1000 genomes]
rs12200438	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12201623	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12201875	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12202735	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12203264	0.91[EUR][1000 genomes]
rs12205960	0.88[EUR][1000 genomes]
rs12206565	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12206990	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12207502	0.86[EUR][1000 genomes]
rs12207687	0.88[EUR][1000 genomes]
rs12207690	0.91[EUR][1000 genomes]
rs12207826	0.91[EUR][1000 genomes]
rs12212162	0.83[EUR][1000 genomes]
rs12212442	0.81[EUR][1000 genomes]
rs12215554	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12215845	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12216357	0.83[EUR][1000 genomes]
rs1884162	0.97[EUR][1000 genomes]
rs9321410	0.97[EUR][1000 genomes]
rs9483596	0.88[EUR][1000 genomes]
rs9483606	0.97[EUR][1000 genomes]
rs9483612	0.81[EUR][1000 genomes]
rs9493679	0.88[EUR][1000 genomes]
rs9493707	0.97[EUR][1000 genomes]
rs9493717	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830812	chr6:133993897-134165407	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 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	chr6:134068600-134082200	Weak transcription	Aorta	Aorta
2	chr6:134070400-134082200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr6:134072200-134082200	Enhancers	Fetal Lung	lung
4	chr6:134073400-134090600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr6:134077800-134085600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr6:134078000-134085400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:134078200-134081400	Weak transcription	NHLF	lung
8	chr6:134078200-134082000	Weak transcription	HSMMtube	muscle
9	chr6:134078200-134082000	Weak transcription	NHDF-Ad	bronchial
10	chr6:134078200-134085600	Weak transcription	Colon Smooth Muscle	Colon
11	chr6:134079000-134081800	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr6:134079200-134081400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:134079200-134082200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:134079200-134084000	Weak transcription	Adipose Nuclei	Adipose
15	chr6:134079600-134084000	Weak transcription	Ovary	ovary
16	chr6:134080000-134082000	Enhancers	A549	lung
17	chr6:134080400-134081800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr6:134080400-134082000	Weak transcription	HSMM	muscle
19	chr6:134080800-134081800	Weak transcription	Fetal Kidney	kidney
20	chr6:134080800-134082000	Enhancers	Fetal Stomach	stomach
21	chr6:134080800-134082600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:134081200-134082400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr6:134081200-134084800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr6:134081200-134086600	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links