Variant report

Variant	rs73089574
Chromosome Location	chr12:39221559-39221560
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10876062	0.95[EUR][1000 genomes]
rs10876185	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1095571	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11833356	0.91[AFR][1000 genomes]
rs11837377	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12422883	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12424244	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12424853	0.85[EUR][1000 genomes]
rs12425783	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12427196	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12580722	0.85[EUR][1000 genomes]
rs17126713	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1878223	0.80[EUR][1000 genomes]
rs1878224	0.80[EUR][1000 genomes]
rs56989350	0.94[ASN][1000 genomes]
rs57950648	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58235891	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59843534	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60409162	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60863548	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61636003	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7138835	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7307936	0.85[EUR][1000 genomes]
rs73084040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73084043	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73084050	0.99[ASN][1000 genomes]
rs73084066	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73084068	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73084092	0.97[AFR][1000 genomes]
rs7308580	0.83[EUR][1000 genomes]
rs73086062	0.91[AFR][1000 genomes]
rs73086073	0.91[AFR][1000 genomes]
rs73089536	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73089563	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7309194	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7315047	0.99[ASN][1000 genomes]
rs7954044	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7968397	0.80[EUR][1000 genomes]
rs7971601	0.80[EUR][1000 genomes]
rs7974510	0.80[EUR][1000 genomes]
rs826836	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs826837	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs851931	0.89[ASN][1000 genomes]
rs9943730	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047623	chr12:39187817-39539939	Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	esv3389115	chr12:39221256-39448458	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:39203200-39276000	Weak transcription	Aorta	Aorta
2	chr12:39204000-39284800	Weak transcription	Lung	lung
3	chr12:39204800-39228800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr12:39204800-39231800	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr12:39205600-39223200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr12:39205600-39229400	Weak transcription	HMEC	breast
7	chr12:39206400-39225800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr12:39206600-39243800	Weak transcription	Left Ventricle	heart
9	chr12:39206600-39249200	Weak transcription	Primary hematopoietic stem cells	blood
10	chr12:39206800-39226200	Weak transcription	GM12878-XiMat	blood
11	chr12:39206800-39241400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr12:39206800-39241400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr12:39216000-39237400	Weak transcription	Hela-S3	cervix
14	chr12:39217600-39232800	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr12:39218200-39223200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr12:39219200-39242600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr12:39219400-39221600	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr12:39219400-39229000	Weak transcription	Primary monocytes fromperipheralblood	blood
19	chr12:39221000-39223000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr12:39221200-39221800	Strong transcription	Liver	Liver
21	chr12:39221400-39221800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
22	chr12:39221400-39222000	Enhancers	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links