Variant report

Variant	rs3802477
Chromosome Location	chr9:101216177-101216178
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11791946	1.00[AFR][1000 genomes]
rs16916379	1.00[AFR][1000 genomes]
rs28469088	0.80[ASN][1000 genomes]
rs3824497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743223	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4743228	0.94[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7047515	0.90[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs73502898	0.99[ASN][1000 genomes]

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	nsv430085	chr9:100928245-101339645	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv831665	chr9:101170061-101367692	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv614936	chr9:101182698-101680380	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101201000-101221200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr9:101204600-101218000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:101205000-101218200	Weak transcription	Brain Angular Gyrus	brain
4	chr9:101214400-101216200	Weak transcription	NHEK	skin
5	chr9:101214400-101217800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr9:101215800-101216400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr9:101215800-101216600	Enhancers	NH-A	brain
8	chr9:101215800-101219000	Enhancers	HMEC	breast
9	chr9:101216000-101216400	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr9:101216000-101216400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr9:101216000-101216400	Enhancers	Osteobl	bone
12	chr9:101216000-101216600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr9:101216000-101218800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr9:101216000-101219000	Enhancers	Breast Myoepithelial Primary Cells	Breast

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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