Variant report

Variant	rs10510994
Chromosome Location	chr3:70061133-70061134
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11923982	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12495230	0.84[MEX][hapmap]
rs12495615	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1491694	0.95[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs1491695	0.80[MEX][hapmap]
rs1491696	0.86[CHB][hapmap];0.90[CHD][hapmap];0.98[GIH][hapmap];0.81[ASN][1000 genomes]
rs1491697	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1491700	0.81[EUR][1000 genomes]
rs17729465	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17785152	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[JPT][hapmap];0.83[MEX][hapmap];0.82[TSI][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17785756	0.88[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap]
rs2101636	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs28462307	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3849467	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4293707	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4855334	0.84[ASN][1000 genomes]
rs4855335	0.80[EUR][1000 genomes]
rs55966844	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58166970	0.81[EUR][1000 genomes]
rs60251138	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60403843	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60647884	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61645126	0.80[ASN][1000 genomes]
rs6549264	0.83[AFR][1000 genomes]
rs6549265	0.86[AFR][1000 genomes]
rs6549267	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6763730	0.81[EUR][1000 genomes]
rs6799525	0.88[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7431273	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7611660	0.86[CHB][hapmap];0.80[CHD][hapmap];0.87[TSI][hapmap];0.90[EUR][1000 genomes]
rs7619924	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7632596	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7649560	0.88[CEU][hapmap];0.81[CHB][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9815027	0.88[CEU][hapmap];0.91[CHB][hapmap];0.84[CHD][hapmap];0.82[JPT][hapmap];0.91[MEX][hapmap];0.92[TSI][hapmap];0.80[EUR][1000 genomes]
rs9818798	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9826811	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9837453	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9840951	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9843867	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9856462	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533396	chr3:69964029-70538306	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	esv3507809	chr3:70058262-70066160	Weak transcription Enhancers Active TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv3507810	chr3:70058712-70066010	Enhancers Weak transcription Active TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv3507811	chr3:70058712-70066010	Enhancers Weak transcription Active TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10510994	RP11-460N16.1	cis	Artery Aorta	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:70055800-70061600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr3:70059600-70061400	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr3:70060400-70061200	Enhancers	Colon Smooth Muscle	Colon
4	chr3:70060400-70061600	Enhancers	Fetal Stomach	stomach
5	chr3:70060800-70061600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:70061000-70061400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr3:70061000-70061400	Enhancers	Aorta	Aorta
8	chr3:70061000-70061400	Enhancers	Pancreas	Pancrea
9	chr3:70061000-70061800	Enhancers	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links