Variant report

Variant	rs9989972
Chromosome Location	chr3:116129630-116129631
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10212415	1.00[ASN][1000 genomes]
rs10212559	1.00[ASN][1000 genomes]
rs1030577	0.85[ASN][1000 genomes]
rs11924642	0.86[ASN][1000 genomes]
rs11928524	0.86[ASN][1000 genomes]
rs12695326	0.86[ASN][1000 genomes]
rs13068349	0.84[ASN][1000 genomes]
rs13069948	1.00[ASN][1000 genomes]
rs13070962	1.00[ASN][1000 genomes]
rs13073414	0.85[ASN][1000 genomes]
rs13077694	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13088599	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13323946	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1367770	0.86[ASN][1000 genomes]
rs1583183	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1619451	0.81[ASN][1000 genomes]
rs1731596	0.99[ASN][1000 genomes]
rs17647091	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1920183	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34642483	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35061171	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4271908	0.93[EUR][1000 genomes]
rs4831096	1.00[ASN][1000 genomes]
rs4831133	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4831134	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4831136	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4831138	1.00[ASN][1000 genomes]
rs6438315	0.86[ASN][1000 genomes]
rs6775240	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6786130	0.84[ASN][1000 genomes]
rs71323440	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71625206	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7619907	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7629472	0.99[ASN][1000 genomes]
rs7630011	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7634137	0.86[ASN][1000 genomes]
rs7637573	1.00[ASN][1000 genomes]
rs7652554	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7652923	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9289050	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9289051	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9823016	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9827984	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9833356	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9838534	0.99[ASN][1000 genomes]
rs9860105	0.93[ASN][1000 genomes]
rs9860236	0.97[ASN][1000 genomes]
rs9860260	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9861474	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9990359	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[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	nsv877361	chr3:116017931-116138039	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9989972	RNF152	trans	lymphoblastoid	RTeQTL

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:116103000-116142000	Weak transcription	Fetal Lung	lung
2	chr3:116112600-116132800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr3:116119800-116133600	Weak transcription	Brain Hippocampus Middle	brain
4	chr3:116124600-116133600	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:116128600-116129800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
6	chr3:116129000-116132400	Weak transcription	Brain Substantia Nigra	brain
7	chr3:116129000-116132800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:116129000-116133400	Weak transcription	Colon Smooth Muscle	Colon
9	chr3:116129600-116132400	Weak transcription	Brain Anterior Caudate	brain
10	chr3:116129600-116132400	Weak transcription	Brain Cingulate Gyrus	brain
11	chr3:116129600-116133400	Weak transcription	Brain Angular Gyrus	brain

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