Variant report

Variant	rs10935306
Chromosome Location	chr3:138875869-138875870
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10804664	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10935312	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11707723	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11719269	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11919258	0.96[ASN][1000 genomes]
rs11919334	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11919416	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11924028	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11927735	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11928890	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12632107	0.91[ASW][hapmap];1.00[CEU][hapmap];0.95[GIH][hapmap];0.86[MEX][hapmap];0.97[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12632125	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13067012	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13068617	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13069247	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13069303	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13074105	0.85[AMR][1000 genomes]
rs13074693	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13075082	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13079289	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13079437	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13083364	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13086745	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13089589	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13096665	0.81[AMR][1000 genomes]
rs13097708	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13097854	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs13100625	0.97[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1554563	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1554565	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17314607	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35781224	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4276214	0.81[ASN][1000 genomes]
rs4365652	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4429660	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4521258	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4894381	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4894382	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4894383	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4894384	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4894397	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4894398	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4894399	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4894402	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56729627	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7426421	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7615670	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7623750	1.00[CEU][hapmap];0.95[GIH][hapmap];0.86[MEX][hapmap];0.97[TSI][hapmap];0.95[EUR][1000 genomes]
rs7626912	0.95[EUR][1000 genomes]
rs7627087	0.95[EUR][1000 genomes]
rs7637464	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7639780	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs952389	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs955084	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs955085	0.85[AMR][1000 genomes];0.82[EUR][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	nsv829736	chr3:138737352-138934758	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1005167	chr3:138854490-138988546	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv536728	chr3:138854490-138988546	Enhancers Bivalent Enhancer Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10935306	RASA2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:138873400-138876000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:138875400-138876200	Enhancers	K562	blood
3	chr3:138875600-138876000	Enhancers	Left Ventricle	heart
4	chr3:138875600-138876200	Enhancers	Brain Cingulate Gyrus	brain
5	chr3:138875600-138876200	Enhancers	Brain Hippocampus Middle	brain
6	chr3:138875600-138876400	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr3:138875600-138876600	Enhancers	H1 Cell Line	embryonic stem cell
8	chr3:138875800-138876200	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr3:138875800-138876800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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