Variant report

Variant	rs792840
Chromosome Location	chr3:99471251-99471252
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1016914	0.82[JPT][hapmap]
rs1021102	0.81[JPT][hapmap]
rs1087198	0.82[JPT][hapmap]
rs1287283	0.82[JPT][hapmap]
rs13317017	0.82[JPT][hapmap]
rs1607993	1.00[CHB][hapmap]
rs1688782	0.82[JPT][hapmap]
rs2452320	0.82[JPT][hapmap]
rs2452321	0.82[JPT][hapmap]
rs4244711	0.82[JPT][hapmap]
rs4479633	0.82[JPT][hapmap]
rs598174	1.00[CHB][hapmap]
rs6440938	0.82[JPT][hapmap]
rs6809988	0.82[JPT][hapmap]
rs704570	0.80[CEU][hapmap];0.83[CHD][hapmap];0.91[JPT][hapmap]
rs704573	0.80[CEU][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap]
rs704575	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs704576	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs704583	0.82[JPT][hapmap]
rs7629426	0.82[JPT][hapmap]
rs7636447	0.82[JPT][hapmap]
rs7638900	0.82[JPT][hapmap]
rs792832	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs792834	0.82[JPT][hapmap]
rs792841	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs793440	0.82[JPT][hapmap]
rs793445	0.82[JPT][hapmap]
rs793452	0.82[JPT][hapmap]
rs793453	0.82[JPT][hapmap]
rs793460	0.82[JPT][hapmap]
rs793461	0.82[JPT][hapmap]
rs793462	0.82[JPT][hapmap]
rs793463	0.82[JPT][hapmap]
rs793465	0.82[JPT][hapmap]
rs793466	0.82[JPT][hapmap]
rs793467	0.82[JPT][hapmap]
rs793468	0.82[JPT][hapmap]
rs793470	0.82[JPT][hapmap]
rs793474	0.82[JPT][hapmap]
rs793479	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs793480	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs793487	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs793494	0.82[JPT][hapmap]
rs793495	0.82[JPT][hapmap]
rs793503	0.82[JPT][hapmap]
rs796977	0.81[JPT][hapmap]
rs796978	0.82[JPT][hapmap]
rs809415	0.82[JPT][hapmap]
rs812657	0.82[JPT][hapmap]
rs9872871	0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877217	chr3:99418950-99496351	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv508231	chr3:99442020-99498951	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs792840	C3orf26	cis	multi-tissue	Pritchard
rs792840	SENP7	cis	parietal	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99443400-99471400	Weak transcription	Aorta	Aorta
2	chr3:99458600-99472200	Weak transcription	Adipose Nuclei	Adipose
3	chr3:99462400-99495600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr3:99464200-99471400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:99467800-99472000	Weak transcription	HSMMtube	muscle
6	chr3:99469200-99471800	Enhancers	HUVEC	blood vessel
7	chr3:99469400-99472400	Enhancers	NHDF-Ad	bronchial
8	chr3:99469400-99474600	Genic enhancers	Osteobl	bone
9	chr3:99469400-99478600	Genic enhancers	Muscle Satellite Cultured Cells	--
10	chr3:99469600-99472600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr3:99469600-99472800	Genic enhancers	HSMM	muscle
12	chr3:99469800-99472400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:99470000-99472400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr3:99470000-99472400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr3:99470000-99472400	Enhancers	NHEK	skin
16	chr3:99470200-99472400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr3:99470200-99472400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr3:99470400-99472400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr3:99470600-99472200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr3:99471000-99472400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr3:99471000-99472400	Enhancers	NHLF	lung
22	chr3:99471000-99472600	Enhancers	NH-A	brain
23	chr3:99471200-99472400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr3:99471200-99472400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr3:99471200-99472400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr3:99471200-99472400	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links