Variant report

Variant	rs72900298
Chromosome Location	chr3:46524733-46524734
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10490771	0.85[AMR][1000 genomes]
rs11574432	0.85[AMR][1000 genomes]
rs11574438	0.85[AMR][1000 genomes]
rs11574444	0.85[AMR][1000 genomes]
rs11575823	0.85[AMR][1000 genomes]
rs1607738	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17078868	0.85[AMR][1000 genomes]
rs17078932	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17078949	1.00[AMR][1000 genomes]
rs17141109	0.85[AMR][1000 genomes]
rs17141112	0.85[AMR][1000 genomes]
rs28584272	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3918378	0.85[AMR][1000 genomes]
rs3918383	0.85[AMR][1000 genomes]
rs3918386	0.85[AMR][1000 genomes]
rs41469351	0.85[AMR][1000 genomes]
rs41475349	0.85[AMR][1000 genomes]
rs41499550	0.85[AMR][1000 genomes]
rs57571354	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58889017	0.85[AMR][1000 genomes]
rs58970771	1.00[AMR][1000 genomes]
rs59568150	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60700685	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60938611	0.85[AMR][1000 genomes]
rs61151866	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61389423	1.00[AMR][1000 genomes]
rs61550542	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61740461	1.00[AMR][1000 genomes]
rs72900271	1.00[AMR][1000 genomes]
rs72900273	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72900285	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72900287	0.85[AMR][1000 genomes]
rs72902113	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72902116	1.00[AMR][1000 genomes]
rs72902152	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9856096	0.85[AMR][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	nsv1014624	chr3:46463424-46549188	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
2	nsv1013306	chr3:46469014-46698538	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1009892	chr3:46496775-46546918	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv536553	chr3:46496775-46546918	Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46511800-46530200	Weak transcription	Right Atrium	heart
2	chr3:46513400-46525800	Weak transcription	Left Ventricle	heart
3	chr3:46522400-46527400	Enhancers	HSMM	muscle
4	chr3:46522800-46530200	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr3:46522800-46530400	Weak transcription	Gastric	stomach
6	chr3:46523400-46525200	Enhancers	NHEK	skin
7	chr3:46523400-46526000	Weak transcription	HSMMtube	muscle
8	chr3:46523400-46529400	Weak transcription	Brain Substantia Nigra	brain
9	chr3:46523600-46526200	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr3:46523800-46524800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr3:46524400-46524800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:46524400-46525000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr3:46524400-46525000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:46524400-46525000	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
15	chr3:46524400-46525000	Enhancers	Osteobl	bone
16	chr3:46524400-46525200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr3:46524400-46525200	Enhancers	HMEC	breast
18	chr3:46524400-46526400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr3:46524400-46528400	Enhancers	Fetal Intestine Large	intestine
20	chr3:46524600-46524800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr3:46524600-46524800	Enhancers	Stomach Mucosa	stomach
22	chr3:46524600-46525000	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr3:46524600-46525000	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:46524600-46525000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr3:46524600-46525000	Enhancers	Fetal Muscle Trunk	muscle
26	chr3:46524600-46525200	Active TSS	Spleen	Spleen
27	chr3:46524600-46525200	Enhancers	NH-A	brain
28	chr3:46524600-46525400	Enhancers	Pancreas	Pancrea
29	chr3:46524600-46525800	Enhancers	Right Ventricle	heart
30	chr3:46524600-46528400	Enhancers	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links