Variant report

Variant	rs9837453
Chromosome Location	chr3:70121697-70121698
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1027234	0.81[ASN][1000 genomes]
rs10510994	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11923982	0.88[AMR][1000 genomes]
rs12495615	0.88[AMR][1000 genomes]
rs1491694	0.85[CEU][hapmap];0.88[JPT][hapmap];0.90[YRI][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1491696	0.88[CEU][hapmap];0.83[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1491697	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1491700	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17729465	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17729489	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17785152	1.00[CEU][hapmap];0.87[JPT][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17785756	1.00[CEU][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2101636	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28462307	0.82[AMR][1000 genomes]
rs2874269	0.85[JPT][hapmap];0.80[YRI][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3849467	0.85[AMR][1000 genomes]
rs4293707	0.80[AMR][1000 genomes]
rs4855334	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4855335	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs55966844	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs60251138	0.87[AMR][1000 genomes]
rs60403843	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs60647884	0.83[AMR][1000 genomes]
rs61645126	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6549267	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6763730	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6799525	1.00[CEU][hapmap];0.87[JPT][hapmap];0.97[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7431273	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7611660	0.83[CEU][hapmap];0.86[YRI][hapmap]
rs7619924	1.00[CEU][hapmap];0.88[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7632596	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7645353	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7649560	1.00[CEU][hapmap];0.97[YRI][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7651972	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9310181	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9815027	1.00[CEU][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9818798	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9818964	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9826811	0.83[AMR][1000 genomes]
rs9840951	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9843867	0.84[AMR][1000 genomes]
rs9856462	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9837453	RP11-460N16.1	cis	Artery Aorta	GTEx

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:70113800-70123800	Weak transcription	Gastric	stomach
2	chr3:70120200-70121800	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
3	chr3:70120200-70121800	Active TSS	Brain Angular Gyrus	brain
4	chr3:70120400-70121800	Active TSS	Brain Hippocampus Middle	brain
5	chr3:70120400-70121800	Active TSS	Brain Inferior Temporal Lobe	brain
6	chr3:70120400-70121800	Active TSS	Stomach Smooth Muscle	stomach
7	chr3:70120600-70121800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:70120600-70121800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
9	chr3:70120600-70121800	Active TSS	Brain Substantia Nigra	brain
10	chr3:70120800-70121800	Active TSS	Aorta	Aorta
11	chr3:70120800-70122400	Enhancers	HepG2	liver
12	chr3:70121000-70121800	Active TSS	Ovary	ovary
13	chr3:70121000-70121800	Active TSS	Right Atrium	heart
14	chr3:70121000-70124200	Weak transcription	Fetal Heart	heart
15	chr3:70121200-70121800	Active TSS	Brain Anterior Caudate	brain
16	chr3:70121200-70121800	Active TSS	Duodenum Smooth Muscle	Duodenum
17	chr3:70121200-70122000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:70121200-70122000	Active TSS	iPS-20b Cell Line	embryonic stem cell
19	chr3:70121600-70121800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr3:70121600-70121800	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr3:70121600-70121800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr3:70121600-70122000	Bivalent Enhancer	Fetal Lung	lung
23	chr3:70121600-70122400	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr3:70121600-70122400	Enhancers	Liver	Liver
25	chr3:70121600-70125400	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr3:70121600-70125600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr3:70121600-70127000	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr3:70121600-70128200	Weak transcription	Fetal Stomach	stomach

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