Variant report

Variant	rs10206521
Chromosome Location	chr2:21420828-21420829
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11694766	0.92[AFR][1000 genomes]
rs1878513	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs384302	0.81[CEU][hapmap];0.91[CHB][hapmap];0.87[ASN][1000 genomes]
rs385777	0.89[ASW][hapmap];0.86[CHB][hapmap];0.85[CHD][hapmap];0.87[ASN][1000 genomes]
rs387752	0.88[ASN][1000 genomes]
rs423836	0.88[ASN][1000 genomes]
rs447986	0.85[ASN][1000 genomes]
rs477978	0.90[EUR][1000 genomes]
rs491752	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs500195	0.90[EUR][1000 genomes]
rs505403	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs510894	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs523095	0.89[EUR][1000 genomes]
rs536854	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs552658	0.90[EUR][1000 genomes]
rs554871	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs557624	0.87[EUR][1000 genomes]
rs565394	0.82[AMR][1000 genomes];0.89[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	nsv873728	chr2:21250914-21460786	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10206521	C2orf84	cis	cerebellum	SCAN
rs10206521	MSGN1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:21416200-21421400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr2:21416200-21424400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr2:21417800-21421000	Enhancers	Brain Substantia Nigra	brain
4	chr2:21418600-21422800	Weak transcription	Fetal Intestine Large	intestine
5	chr2:21419400-21421200	Enhancers	Fetal Brain Male	brain
6	chr2:21419600-21421000	Enhancers	Brain Cingulate Gyrus	brain
7	chr2:21419600-21421800	Enhancers	Brain Hippocampus Middle	brain
8	chr2:21419800-21421000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr2:21420600-21421000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr2:21420800-21421000	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
11	chr2:21420800-21421600	Enhancers	Fetal Brain Female	brain
12	chr2:21420800-21422000	Weak transcription	Brain Anterior Caudate	brain

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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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