Variant report

Variant	rs11917956
Chromosome Location	chr3:111538503-111538504
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11715999	0.95[EUR][1000 genomes]
rs12491977	0.82[CEU][hapmap];0.82[EUR][1000 genomes]
rs1282972	0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs1513334	1.00[TSI][hapmap]
rs1709249	0.83[GIH][hapmap]
rs2399395	1.00[TSI][hapmap]
rs58072614	0.95[EUR][1000 genomes]
rs6789392	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs7620801	1.00[TSI][hapmap]
rs7648126	1.00[TSI][hapmap]
rs951338	1.00[TSI][hapmap]

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	nsv829676	chr3:111464087-111619200	Genic enhancers Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11917956	PHLDB2	cis	lymphoblastoid	seeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111533000-111542800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:111536600-111539000	Weak transcription	Stomach Mucosa	stomach
3	chr3:111536600-111541800	Weak transcription	Gastric	stomach
4	chr3:111537800-111539000	ZNF genes & repeats	Liver	Liver
5	chr3:111538200-111538800	Active TSS	Fetal Heart	heart
6	chr3:111538400-111539000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr3:111538400-111539600	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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