Variant report

Variant	rs2181015
Chromosome Location	chr6:4501489-4501490
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1009602	0.81[AMR][1000 genomes]
rs1011088	0.83[CHB][hapmap];0.80[CHD][hapmap];0.82[JPT][hapmap]
rs1011089	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs11752793	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2150231	0.82[JPT][hapmap]
rs4959300	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4959301	0.85[CHB][hapmap];0.93[CHD][hapmap];0.82[JPT][hapmap]
rs4959993	0.83[CHB][hapmap];0.80[CHD][hapmap];0.82[JPT][hapmap]
rs4959997	0.84[YRI][hapmap];0.82[AMR][1000 genomes]
rs4959998	0.83[CHB][hapmap];0.87[CHD][hapmap];0.90[TSI][hapmap];0.84[YRI][hapmap];0.83[AMR][1000 genomes]
rs57361712	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61449781	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6914063	0.83[CHB][hapmap];0.80[CHD][hapmap];0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3421990	chr6:4446933-4659639	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv830576	chr6:4447554-4610604	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv970369	chr6:4481968-4554947	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv883414	chr6:4491515-4518250	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2181015	FOXC1	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4497200-4502000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:4500400-4506600	Weak transcription	Foreskin Melanocyte 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