Variant report

Variant	rs16824787
Chromosome Location	chr3:116062569-116062570
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]
rs1030577	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11924642	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs11928524	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12695326	0.84[ASN][1000 genomes]
rs13068349	0.84[ASN][1000 genomes]
rs13069948	0.88[CEU][hapmap];0.88[CHB][hapmap]
rs13070962	0.88[CEU][hapmap];0.88[CHB][hapmap]
rs13073414	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs13077694	0.82[EUR][1000 genomes]
rs13079395	0.90[JPT][hapmap]
rs13088599	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13323946	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1367770	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1583183	0.84[EUR][1000 genomes]
rs1731596	0.88[CEU][hapmap];0.88[CHB][hapmap]
rs17647031	0.90[JPT][hapmap]
rs17647091	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17703257	0.91[JPT][hapmap]
rs1920183	0.81[EUR][1000 genomes]
rs2033406	0.83[JPT][hapmap]
rs2867100	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap]
rs34642483	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4831096	0.89[CHB][hapmap]
rs4831131	0.83[JPT][hapmap]
rs4831133	0.88[CEU][hapmap];0.88[CHB][hapmap];0.82[EUR][1000 genomes]
rs4831134	1.00[CEU][hapmap];0.89[CHB][hapmap];0.84[EUR][1000 genomes]
rs4831136	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[EUR][1000 genomes]
rs6438315	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6775240	0.84[EUR][1000 genomes]
rs6786130	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs71323440	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs71625206	0.84[EUR][1000 genomes]
rs7619907	0.84[EUR][1000 genomes]
rs7630011	0.84[EUR][1000 genomes]
rs7634137	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7637573	0.88[CEU][hapmap];0.88[CHB][hapmap]
rs7652554	0.84[EUR][1000 genomes]
rs7652923	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[EUR][1000 genomes]
rs9289050	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[EUR][1000 genomes]
rs9289051	1.00[CEU][hapmap];0.89[CHB][hapmap];0.82[EUR][1000 genomes]
rs9823016	0.84[EUR][1000 genomes]
rs9823782	0.83[JPT][hapmap]
rs9827984	0.84[EUR][1000 genomes]
rs9833356	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9838534	0.88[CEU][hapmap];0.88[CHB][hapmap]
rs9860260	1.00[CEU][hapmap];0.89[CHB][hapmap];0.84[EUR][1000 genomes]
rs9861474	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9870357	0.83[JPT][hapmap]
rs9989972	0.81[EUR][1000 genomes]
rs9990359	0.81[EUR][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
rs16824787	RNF152	trans	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:116056800-116064000	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr3:116058800-116069000	Weak transcription	Brain Angular Gyrus	brain
3	chr3:116059000-116062800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:116061200-116063800	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr3:116061400-116063400	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr3:116061400-116063400	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr3:116061600-116063200	Weak transcription	Brain Anterior Caudate	brain
8	chr3:116061800-116069000	Weak transcription	Brain Cingulate Gyrus	brain
9	chr3:116062000-116066800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr3:116062000-116067000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr3:116062200-116063400	Weak transcription	Colon Smooth Muscle	Colon
12	chr3:116062200-116066800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr3:116062400-116066800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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