Variant report

Variant	rs800060
Chromosome Location	chr3:144363789-144363790
allele	C/T
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:36)

rs_ID	r²[population]
rs1088971	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1088972	0.86[EUR][1000 genomes]
rs1091544	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1091713	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1092103	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1151556	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1151557	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1151563	0.84[EUR][1000 genomes]
rs1178937	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1178938	0.84[EUR][1000 genomes]
rs1178939	0.84[EUR][1000 genomes]
rs1178940	0.84[EUR][1000 genomes]
rs800041	0.85[EUR][1000 genomes]
rs800043	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs800045	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs800047	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs800049	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs800050	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs800051	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs800053	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs800054	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs800055	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs800057	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs800058	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs800059	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs800061	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs800062	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs800063	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs800064	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs800065	0.83[EUR][1000 genomes]
rs800094	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs800096	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs800097	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs800100	0.85[EUR][1000 genomes]
rs800102	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs800103	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[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	nsv532633	chr3:143802417-144440646	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv591928	chr3:144050897-144822081	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv3379740	chr3:144225847-144433818	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv2757895	chr3:144236202-144391387	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv2759185	chr3:144236202-144391387	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:144362600-144364600	Enhancers	HUES48 Cell Line	embryonic stem cell
2	chr3:144362800-144364000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:144362800-144364200	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr3:144363000-144363800	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:144363000-144363800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr3:144363000-144364000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:144363000-144370800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:144363000-144371000	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr3:144363200-144370800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr3:144363200-144370800	Weak transcription	NHDF-Ad	bronchial
11	chr3:144363200-144371400	Weak transcription	NHLF	lung
12	chr3:144363600-144364200	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr3:144363600-144364800	Enhancers	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links