Variant report

Variant	rs9839708
Chromosome Location	chr3:85058885-85058886
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12632010	0.81[ASN][1000 genomes]
rs12637056	0.81[ASN][1000 genomes]
rs12714616	0.84[EUR][1000 genomes]
rs12714617	0.84[EUR][1000 genomes]
rs13066623	0.84[EUR][1000 genomes]
rs13075478	0.83[EUR][1000 genomes]
rs13082518	0.84[EUR][1000 genomes]
rs13092125	0.83[EUR][1000 genomes]
rs17022236	0.81[ASN][1000 genomes]
rs17022250	0.81[ASN][1000 genomes]
rs1872552	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1872554	0.81[ASN][1000 genomes]
rs2220245	0.81[ASN][1000 genomes]
rs2326121	0.81[ASN][1000 genomes]
rs6789062	0.81[ASN][1000 genomes]
rs7646952	0.81[ASN][1000 genomes]
rs9647393	0.84[EUR][1000 genomes]
rs9815258	0.85[EUR][1000 genomes]
rs9818659	0.85[EUR][1000 genomes]
rs9821807	0.84[EUR][1000 genomes]
rs9823454	0.85[EUR][1000 genomes]
rs9828496	0.84[EUR][1000 genomes]
rs9860513	0.85[EUR][1000 genomes]
rs9874302	0.82[EUR][1000 genomes]
rs9881257	0.85[EUR][1000 genomes]
rs9883443	0.83[EUR][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	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1001316	chr3:84773522-85071342	Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv877091	chr3:84876250-85069287	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	esv1829788	chr3:84926769-85086403	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85055600-85068200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr3:85055800-85081400	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr3:85057000-85059400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr3:85057200-85071400	Weak transcription	Brain Anterior Caudate	brain

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