Variant report

Variant	rs11202952
Chromosome Location	chr10:90825718-90825719
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11202953	0.90[JPT][hapmap]
rs12218492	0.86[JPT][hapmap]
rs1937332	0.94[LWK][hapmap];0.85[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs1937333	0.96[YRI][hapmap];0.86[AFR][1000 genomes]
rs4933492	0.86[ASN][1000 genomes]
rs4934449	0.81[JPT][hapmap]
rs4934450	0.86[ASN][1000 genomes]
rs7091729	0.89[ASN][1000 genomes]
rs7100691	0.85[JPT][hapmap]
rs7918678	0.96[YRI][hapmap];0.96[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv831943	chr10:90664836-90865834	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv467416	chr10:90815975-90889997	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv551842	chr10:90815975-90889997	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
6	nsv895880	chr10:90816060-90874029	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
7	nsv831944	chr10:90822654-90967018	Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11202952	IFIT5	cis	cerebellum	SCAN
rs11202952	ASPHD1	trans	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90801400-90829400	Weak transcription	Aorta	Aorta
2	chr10:90822400-90825800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr10:90823000-90833600	Weak transcription	Ovary	ovary
4	chr10:90825000-90827600	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr10:90825200-90826000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr10:90825200-90829400	Weak transcription	Adipose Nuclei	Adipose
7	chr10:90825200-90829400	Weak transcription	Small Intestine	intestine
8	chr10:90825200-90833400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr10:90825600-90833200	Weak transcription	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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