Variant report

Variant	rs10868851
Chromosome Location	chr9:71069785-71069786
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10116868	0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1041290	0.95[EUR][1000 genomes]
rs10511958	0.90[CHB][hapmap];0.84[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10735596	0.86[JPT][hapmap]
rs10780962	0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10780963	0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10780967	0.80[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs10781002	0.90[GIH][hapmap]
rs10868795	0.86[JPT][hapmap]
rs10868796	0.86[JPT][hapmap]
rs10868803	0.86[JPT][hapmap]
rs10868804	0.86[JPT][hapmap]
rs10868852	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs10868876	0.97[ASN][1000 genomes]
rs10868877	0.90[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10868879	0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11141466	1.00[MEX][hapmap]
rs11142075	0.86[JPT][hapmap];1.00[MEX][hapmap]
rs11142199	0.86[JPT][hapmap]
rs11142305	0.86[JPT][hapmap]
rs11142391	0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs11142393	0.95[EUR][1000 genomes]
rs11142449	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs11142461	0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs11142468	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11142500	1.00[ASW][hapmap];0.95[GIH][hapmap];0.93[LWK][hapmap];0.97[MKK][hapmap];0.86[AFR][1000 genomes]
rs11142543	0.90[ASN][1000 genomes]
rs11142549	0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11142650	0.85[JPT][hapmap]
rs12000789	0.84[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12238439	0.91[GIH][hapmap]
rs12353500	0.82[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs13439981	1.00[GIH][hapmap]
rs1353009	0.90[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1492823	0.86[JPT][hapmap]
rs1492824	0.86[JPT][hapmap]
rs17056009	0.86[CHB][hapmap];0.95[JPT][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1887889	0.86[JPT][hapmap]
rs2026033	0.86[JPT][hapmap]
rs2026034	0.86[JPT][hapmap]
rs265083	0.81[GIH][hapmap]
rs35011246	0.96[ASN][1000 genomes]
rs4237244	0.80[ASN][1000 genomes]
rs4237245	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs4744594	0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs4745041	0.80[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs59478866	0.96[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs6560144	0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7019238	0.95[GIH][hapmap]
rs7020465	0.86[JPT][hapmap]
rs7022220	0.85[JPT][hapmap]
rs7022394	0.93[ASN][1000 genomes]
rs7025140	0.86[JPT][hapmap]
rs7026163	0.88[ASN][1000 genomes]
rs7030076	0.93[ASN][1000 genomes]
rs7031619	0.96[ASN][1000 genomes]
rs7035038	0.88[ASN][1000 genomes]
rs7039149	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs7039686	0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7042123	0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs72714318	0.95[EUR][1000 genomes]
rs7855134	0.91[GIH][hapmap]
rs7860270	0.83[ASN][1000 genomes]
rs7875408	0.83[AFR][1000 genomes]
rs984109	1.00[TSI][hapmap]

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	nsv427847	chr9:70318730-71153527	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10868851	RORA	trans	lymphoblastoid	seeQTL

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:71051200-71091800	Weak transcription	Psoas Muscle	Psoas
2	chr9:71062200-71075800	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr9:71062400-71072200	Weak transcription	Fetal Heart	heart
4	chr9:71063200-71070800	Weak transcription	Fetal Lung	lung
5	chr9:71065000-71069800	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr9:71065800-71080000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr9:71067600-71071400	Enhancers	Colon Smooth Muscle	Colon
8	chr9:71067800-71070000	Weak transcription	Right Atrium	heart
9	chr9:71067800-71077000	Weak transcription	Lung	lung
10	chr9:71068400-71071200	Enhancers	Rectal Smooth Muscle	rectum
11	chr9:71068800-71070400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr9:71068800-71071000	Enhancers	Fetal Stomach	stomach
13	chr9:71069200-71070200	Enhancers	Left Ventricle	heart
14	chr9:71069400-71069800	Enhancers	Right Ventricle	heart
15	chr9:71069400-71070000	Enhancers	Fetal Kidney	kidney
16	chr9:71069400-71070200	Enhancers	Spleen	Spleen
17	chr9:71069400-71070800	Enhancers	Skeletal Muscle Male	skeletal muscle
18	chr9:71069600-71070000	Flanking Active TSS	Stomach Smooth Muscle	stomach
19	chr9:71069600-71070200	Strong transcription	Aorta	Aorta
20	chr9:71069600-71070400	Weak transcription	NHLF	lung
21	chr9:71069600-71071000	Enhancers	Breast Myoepithelial Primary Cells	Breast

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