Variant report

Variant	rs2465780
Chromosome Location	chr11:106868737-106868738
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs2445098	0.98[ASN][1000 genomes]
rs2445099	0.98[ASN][1000 genomes]
rs2465779	0.98[ASN][1000 genomes]
rs2465782	0.86[EUR][1000 genomes]
rs2510595	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2510597	0.97[ASN][1000 genomes]
rs2510598	0.97[ASN][1000 genomes]
rs2510600	0.98[ASN][1000 genomes]
rs2510601	0.97[ASN][1000 genomes]
rs2513106	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2513108	0.98[ASN][1000 genomes]
rs2513137	0.97[ASN][1000 genomes]
rs2513138	0.93[ASN][1000 genomes]
rs3100765	0.86[EUR][1000 genomes]
rs3133355	0.97[ASN][1000 genomes]
rs7110185	1.00[ASN][1000 genomes]
rs7932141	0.95[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	nsv531938	chr11:106760733-107156814	Enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs2465780	WDR20	trans	cerebellum	SCAN
rs2465780	MMP10	cis	cerebellum	SCAN
rs2465780	ALKBH8	cis	cerebellum	SCAN
rs2465780	CARD17	cis	cerebellum	SCAN
rs2465780	CASP4	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:106861200-106869400	Weak transcription	NHLF	lung
2	chr11:106861600-106886200	Weak transcription	Fetal Brain Male	brain
3	chr11:106862200-106868800	Weak transcription	Fetal Muscle Leg	muscle
4	chr11:106866800-106869000	Enhancers	Brain Cingulate Gyrus	brain
5	chr11:106866800-106869000	Enhancers	Fetal Lung	lung
6	chr11:106866800-106869400	Enhancers	Brain Hippocampus Middle	brain
7	chr11:106866800-106870600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr11:106867400-106870000	Enhancers	NHDF-Ad	bronchial
9	chr11:106868000-106869400	Enhancers	Fetal Heart	heart
10	chr11:106868400-106869600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr11:106868600-106869400	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr11:106868600-106870200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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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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