Variant report

Variant	rs9836220
Chromosome Location	chr3:89074355-89074356
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs12486137	0.80[AMR][1000 genomes]
rs12714728	0.80[AMR][1000 genomes]
rs1390704	0.80[AMR][1000 genomes]
rs1496512	0.97[EUR][1000 genomes]
rs1496513	0.80[AMR][1000 genomes]
rs1566054	0.80[AMR][1000 genomes]
rs17737010	0.80[AMR][1000 genomes]
rs1908755	0.81[EUR][1000 genomes]
rs2132581	0.80[AMR][1000 genomes]
rs2132583	0.80[AMR][1000 genomes]
rs28680322	0.80[AMR][1000 genomes]
rs33923135	0.80[AMR][1000 genomes]
rs34038204	0.80[AMR][1000 genomes]
rs4105153	0.80[AMR][1000 genomes]
rs4855797	0.80[AMR][1000 genomes]
rs6551385	0.97[EUR][1000 genomes]
rs6551388	0.80[AMR][1000 genomes]
rs6793785	0.80[AMR][1000 genomes]
rs6794580	0.80[AMR][1000 genomes]
rs6805818	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6807861	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7610568	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7626049	0.80[AMR][1000 genomes]
rs7641434	0.80[AMR][1000 genomes]
rs9811971	0.80[AMR][1000 genomes]
rs9830451	0.84[GIH][hapmap];0.95[MEX][hapmap];0.83[TSI][hapmap]
rs9844728	0.80[AMR][1000 genomes]
rs9855364	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9856787	0.80[AMR][1000 genomes]
rs9865324	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834759	chr3:88901229-89105366	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv877158	chr3:89018866-89103302	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv877159	chr3:89018866-89207222	Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv877160	chr3:89051475-89135125	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv998460	chr3:89064073-89188335	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv536638	chr3:89064073-89188335	Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv822174	chr3:89066876-89076114	Enhancers Flanking Active TSS Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases
8	nsv520982	chr3:89072526-89076055	Flanking Active TSS Weak transcription Enhancers Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89069000-89074400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:89073200-89074400	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr3:89073800-89074400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr3:89073800-89074600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:89074000-89074400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:89074000-89074600	Enhancers	Brain Germinal Matrix	brain
7	chr3:89074000-89074800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:89074000-89074800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr3:89074200-89074400	Flanking Active TSS	Osteobl	bone
10	chr3:89074200-89074600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:89074200-89074600	Active TSS	Brain Substantia Nigra	brain
12	chr3:89074200-89074600	Enhancers	HMEC	breast
13	chr3:89074200-89074600	Active TSS	NH-A	brain
14	chr3:89074200-89074600	Active TSS	NHDF-Ad	bronchial
15	chr3:89074200-89074800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links