Variant report

Variant	rs6479648
Chromosome Location	chr10:61510559-61510560
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10128501	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10821585	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10993981	0.97[ASN][1000 genomes]
rs10993982	0.97[ASN][1000 genomes]
rs1171582	0.91[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs1171583	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1171586	0.95[ASN][1000 genomes]
rs1171587	0.90[ASN][1000 genomes]
rs1171590	0.97[ASN][1000 genomes]
rs1171594	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1171609	0.86[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs1171610	0.91[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs1180565	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2137905	0.87[ASN][1000 genomes]
rs2671611	0.82[CEU][hapmap];0.92[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs2671612	0.86[ASN][1000 genomes]
rs2671613	0.87[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs4948360	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9943397	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][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	esv3347621	chr10:61490062-61527578	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3427654	chr10:61491530-61526282	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	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
rs6479648	SLC16A9	cis	Cerebellum	GTEx

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61505400-61511000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
2	chr10:61507200-61510600	Enhancers	Pancreatic Islets	Pancreatic Islet
3	chr10:61508200-61511000	Enhancers	Psoas Muscle	Psoas
4	chr10:61510000-61511200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
5	chr10:61510200-61510600	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
6	chr10:61510200-61510800	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr10:61510200-61513200	Active TSS	Fetal Muscle Leg	muscle
8	chr10:61510400-61510600	Enhancers	Aorta	Aorta
9	chr10:61510400-61510600	Flanking Active TSS	Fetal Muscle Trunk	muscle
10	chr10:61510400-61510600	Active TSS	Skeletal Muscle Male	skeletal muscle
11	chr10:61510400-61510800	Enhancers	Ovary	ovary
12	chr10:61510400-61513200	Active TSS	HSMMtube	muscle

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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

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