Variant report

Variant	rs9809878
Chromosome Location	chr3:116032441-116032442
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12494652	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13073491	0.82[CHB][hapmap]
rs1993733	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2100807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4831092	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4831093	0.82[CHB][hapmap]
rs6775293	0.82[CHB][hapmap]
rs7611085	1.00[CHB][hapmap]
rs7621652	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9872860	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv3957	chr3:115986950-116032625	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv877361	chr3:116017931-116138039	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:116019600-116037000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr3:116022200-116033000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr3:116026200-116037200	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr3:116026400-116034000	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr3:116028200-116037400	Weak transcription	Brain Germinal Matrix	brain
6	chr3:116028800-116033200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr3:116029400-116032800	Weak transcription	K562	blood
8	chr3:116029400-116033400	Weak transcription	Rectal Smooth Muscle	rectum
9	chr3:116031600-116032600	Enhancers	Brain Anterior Caudate	brain
10	chr3:116031600-116032600	Enhancers	Brain Substantia Nigra	brain
11	chr3:116032000-116032600	Enhancers	Brain Cingulate Gyrus	brain
12	chr3:116032000-116034400	Enhancers	Fetal Heart	heart
13	chr3:116032200-116032800	Enhancers	Colon Smooth Muscle	Colon
14	chr3:116032400-116033800	Weak transcription	Brain Hippocampus Middle	brain
15	chr3:116032400-116037200	Weak transcription	Brain Angular Gyrus	brain
16	chr3:116032400-116038200	Weak transcription	Brain Inferior Temporal Lobe	brain

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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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