Variant report

Variant	rs6550616
Chromosome Location	chr3:21685248-21685249
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1021351	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1032314	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12491351	0.83[AMR][1000 genomes]
rs1320292	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1387819	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1387823	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2335812	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3860585	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3936575	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4241507	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6793079	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7610303	0.89[AMR][1000 genomes]
rs7619318	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7630501	0.86[AMR][1000 genomes]
rs7649561	0.84[AMR][1000 genomes]
rs9828403	0.84[AMR][1000 genomes]
rs986043	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9864337	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs986503	0.83[AMR][1000 genomes]
rs9881055	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534005	chr3:21387588-22003293	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1010460	chr3:21516810-21839871	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv834631	chr3:21612283-21763887	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv1007048	chr3:21666807-21865229	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv536516	chr3:21666807-21865229	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:21651600-21686600	Weak transcription	Fetal Stomach	stomach
2	chr3:21682600-21686400	Weak transcription	Fetal Lung	lung
3	chr3:21682800-21686800	Weak transcription	Psoas Muscle	Psoas
4	chr3:21683600-21686600	Weak transcription	Brain Hippocampus Middle	brain
5	chr3:21683800-21686400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:21683800-21686600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr3:21683800-21686600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:21683800-21706600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr3:21684000-21686800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr3:21684200-21686200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr3:21684200-21687000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr3:21684800-21685400	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr3:21684800-21686400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:21684800-21687200	Enhancers	Skeletal Muscle Female	skeletal muscle
15	chr3:21685000-21686000	Enhancers	Right Ventricle	heart
16	chr3:21685200-21686200	Enhancers	Aorta	Aorta
17	chr3:21685200-21686200	Weak transcription	NHLF	lung
18	chr3:21685200-21687000	Enhancers	Right Atrium	heart
19	chr3:21685200-21687200	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr3:21685200-21688400	Enhancers	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links