Variant report

Variant	rs10475524
Chromosome Location	chr5:167367057-167367058
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10038819	0.93[AFR][1000 genomes]
rs10475862	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11134481	0.83[GIH][hapmap];0.83[TSI][hapmap];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56738437	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62384403	1.00[EUR][1000 genomes]
rs62384408	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62384409	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6882229	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6886222	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9942389	1.00[CEU][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.81[AMR][1000 genomes];0.90[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	nsv830546	chr5:167303135-167456271	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10475524	LOC93622	trans	lymphoblastoid	RTeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:167361600-167371200	Weak transcription	NHEK	skin
2	chr5:167362200-167370000	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr5:167362400-167367200	Weak transcription	HMEC	breast
4	chr5:167362600-167369600	Weak transcription	Fetal Heart	heart
5	chr5:167362600-167370000	Weak transcription	HSMMtube	muscle
6	chr5:167363800-167372600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr5:167364400-167376400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr5:167364600-167372800	Weak transcription	Right Atrium	heart
9	chr5:167365000-167369200	Weak transcription	HSMM	muscle
10	chr5:167365200-167371000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr5:167366200-167367200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr5:167366600-167367600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr5:167366600-167368600	Weak transcription	Left Ventricle	heart
14	chr5:167366800-167367800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr5:167366800-167368600	Enhancers	Osteobl	bone
16	chr5:167367000-167367800	Enhancers	Right Ventricle	heart
17	chr5:167367000-167368600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr5:167367000-167369800	Weak transcription	NH-A	brain
19	chr5:167367000-167370600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links