Variant report

Variant	rs2536501
Chromosome Location	chr7:106711398-106711399
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs12705404	0.92[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[MKK][hapmap];0.84[ASN][1000 genomes]
rs1476878	0.84[JPT][hapmap]
rs1476879	0.84[JPT][hapmap]
rs2244846	0.84[JPT][hapmap]
rs2251838	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2536495	0.84[JPT][hapmap]
rs2536502	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536504	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536508	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2536509	0.87[ASN][1000 genomes]
rs2707377	0.90[ASN][1000 genomes]
rs6466156	0.83[GIH][hapmap]
rs7808028	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][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	nsv831087	chr7:106673465-106872460	Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2536501	PSMC2	cis	parietal	SCAN
rs2536501	HBP1	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:106701600-106716000	Weak transcription	HUVEC	blood vessel
2	chr7:106703800-106711400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
3	chr7:106706400-106711800	Weak transcription	Brain Anterior Caudate	brain
4	chr7:106706400-106718600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr7:106706400-106720000	Weak transcription	Spleen	Spleen
6	chr7:106706800-106719200	Weak transcription	Fetal Brain Male	brain
7	chr7:106708800-106718600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr7:106710200-106720000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr7:106710400-106712800	Strong transcription	K562	blood
10	chr7:106711200-106711400	Enhancers	Rectal Smooth Muscle	rectum
11	chr7:106711200-106711600	Enhancers	Pancreatic Islets	Pancreatic Islet

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