Variant report

Variant	rs3858083
Chromosome Location	chr9:96884157-96884158
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs10739968	0.90[CEU][hapmap];0.90[CHB][hapmap];0.86[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2398901	0.89[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893589	chr9:96624645-96884544	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv482457	chr9:96813852-96996170	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	217 gene(s)	inside rSNPs	diseases
3	nsv831655	chr9:96834042-97042009	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	218 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3858083	ASPN	cis	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96845600-96885400	Weak transcription	Gastric	stomach
2	chr9:96860800-96886800	Weak transcription	Aorta	Aorta
3	chr9:96861400-96884600	Weak transcription	Ovary	ovary
4	chr9:96867600-96889600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr9:96871400-96885000	Weak transcription	Right Atrium	heart
6	chr9:96871400-96896400	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr9:96873400-96888600	Weak transcription	HSMM	muscle
8	chr9:96873600-96885600	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr9:96874200-96896400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr9:96874400-96884200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr9:96874400-96885600	Weak transcription	Brain Hippocampus Middle	brain
12	chr9:96875400-96887200	Weak transcription	Brain Anterior Caudate	brain
13	chr9:96875800-96885200	Weak transcription	Brain Substantia Nigra	brain
14	chr9:96875800-96886600	Weak transcription	Adipose Nuclei	Adipose
15	chr9:96881600-96885600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr9:96881800-96896000	Weak transcription	Left Ventricle	heart
17	chr9:96883400-96886600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr9:96883400-96896800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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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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