Variant report

Variant	rs10489274
Chromosome Location	chr1:172923494-172923495
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10798242	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10798243	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10912497	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10912499	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10912501	0.82[EUR][1000 genomes]
rs12035082	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12037203	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12037606	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12088638	0.91[EUR][1000 genomes]
rs12402215	0.82[EUR][1000 genomes]
rs12407389	0.94[EUR][1000 genomes]
rs12410129	0.83[EUR][1000 genomes]
rs12565596	0.81[EUR][1000 genomes]
rs12739009	1.00[JPT][hapmap]
rs1894636	0.94[EUR][1000 genomes]
rs2179425	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2206363	0.81[EUR][1000 genomes]
rs2206364	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2206365	0.82[EUR][1000 genomes]
rs2206366	0.81[EUR][1000 genomes]
rs2213746	0.94[EUR][1000 genomes]
rs2422257	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2422260	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4145469	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs4916199	0.94[EUR][1000 genomes]
rs4916285	1.00[JPT][hapmap]
rs4916286	0.94[EUR][1000 genomes]
rs4916289	0.82[EUR][1000 genomes]
rs4916290	0.82[EUR][1000 genomes]
rs6425189	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6674470	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6688532	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7517726	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7527986	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7539319	0.81[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs7539951	0.82[EUR][1000 genomes]
rs926472	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs926473	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs926474	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9283384	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv831904	chr1:172912110-173070429	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172915200-172924600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr1:172918000-172929000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:172918600-172924200	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr1:172921200-172925600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr1:172921400-172924200	Weak transcription	Osteobl	bone
6	chr1:172921400-172924400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr1:172921400-172927200	Enhancers	HUVEC	blood vessel
8	chr1:172921600-172923600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:172921600-172923600	Weak transcription	HSMM	muscle
10	chr1:172921600-172923800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr1:172921600-172924800	Weak transcription	Fetal Stomach	stomach
12	chr1:172921600-172929600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr1:172921800-172923600	Weak transcription	NHLF	lung
14	chr1:172921800-172923800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr1:172921800-172924000	Weak transcription	NHEK	skin
16	chr1:172921800-172924400	Weak transcription	HMEC	breast
17	chr1:172922200-172924400	Weak transcription	Hela-S3	cervix
18	chr1:172923000-172926000	Enhancers	HSMMtube	muscle
19	chr1:172923000-172926200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr1:172923200-172925800	Enhancers	NHDF-Ad	bronchial
21	chr1:172923400-172925400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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