Variant report

Variant	rs6421473
Chromosome Location	chr1:62715391-62715392
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs12122645	0.97[ASN][1000 genomes]
rs1806870	0.85[ASN][1000 genomes]
rs2258470	0.81[ASN][1000 genomes]
rs2260581	0.81[ASN][1000 genomes]
rs2262106	0.81[ASN][1000 genomes]
rs2262110	0.81[ASN][1000 genomes]
rs2457806	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2457808	0.96[ASN][1000 genomes]
rs2457810	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2457811	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2666472	0.81[ASN][1000 genomes]
rs2666473	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2666474	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2666475	0.82[ASN][1000 genomes]
rs2666476	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2666479	0.80[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs2666481	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2666482	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2765241	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2765244	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2765245	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2765247	0.81[ASN][1000 genomes]
rs2765248	0.81[ASN][1000 genomes]
rs2765249	0.81[ASN][1000 genomes]
rs2765250	0.81[EUR][1000 genomes]
rs2765270	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2774937	0.84[ASN][1000 genomes]
rs2774938	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7529326	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs958803	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9662717	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs982504	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004446	chr1:62394631-62813533	Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
2	nsv534984	chr1:62394631-62813533	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1009398	chr1:62656660-62780644	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:62704000-62720600	Weak transcription	Right Atrium	heart
2	chr1:62707600-62719600	Weak transcription	Fetal Kidney	kidney
3	chr1:62707600-62732000	Weak transcription	Gastric	stomach
4	chr1:62707800-62727400	Weak transcription	Pancreas	Pancrea
5	chr1:62708200-62720000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
6	chr1:62710800-62731800	Weak transcription	Fetal Intestine Small	intestine
7	chr1:62711400-62718000	Weak transcription	HepG2	liver
8	chr1:62711600-62730600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr1:62711600-62737200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr1:62712000-62727400	Weak transcription	Fetal Lung	lung
11	chr1:62712000-62731600	Weak transcription	Placenta	Placenta
12	chr1:62712200-62716400	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr1:62713400-62716000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr1:62713400-62728800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr1:62713600-62716200	Weak transcription	Fetal Stomach	stomach
16	chr1:62713800-62716200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr1:62713800-62718000	Weak transcription	Fetal Muscle Leg	muscle
18	chr1:62714000-62717800	Weak transcription	Fetal Heart	heart
19	chr1:62714200-62716400	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links