Variant report

Variant	rs9871340
Chromosome Location	chr3:111548584-111548585
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10934110	0.87[EUR][1000 genomes]
rs11717092	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12637888	0.87[EUR][1000 genomes]
rs4373041	0.87[EUR][1000 genomes]
rs4472023	0.83[EUR][1000 genomes]
rs4513422	0.83[EUR][1000 genomes]
rs4610200	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4682063	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6438018	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6772828	0.83[EUR][1000 genomes]
rs6772912	0.82[EUR][1000 genomes]
rs6772930	0.83[EUR][1000 genomes]
rs6794180	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9288930	0.89[ASN][1000 genomes]
rs9814037	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9817633	0.80[ASN][1000 genomes]
rs9817777	0.83[EUR][1000 genomes]
rs9829968	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9876709	0.87[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	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
rs9871340	PHLDB2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111541000-111550600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr3:111541200-111577600	Weak transcription	Pancreas	Pancrea
3	chr3:111543800-111550800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr3:111544400-111556800	Weak transcription	Liver	Liver
5	chr3:111545800-111550800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:111545800-111550800	Weak transcription	NHEK	skin
7	chr3:111546200-111550400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr3:111546200-111550600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr3:111546200-111550600	Weak transcription	HMEC	breast
10	chr3:111546200-111550800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:111546800-111549000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr3:111547600-111556800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr3:111548400-111549000	Enhancers	Placenta	Placenta

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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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