Variant report

Variant	rs6820382
Chromosome Location	chr4:86044340-86044341
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs13106784	1.00[ASN][1000 genomes]
rs13110391	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13113025	1.00[ASN][1000 genomes]
rs13113065	1.00[ASN][1000 genomes]
rs13120417	1.00[ASN][1000 genomes]
rs13122214	1.00[ASN][1000 genomes]
rs13124858	1.00[ASN][1000 genomes]
rs13133142	1.00[ASN][1000 genomes]
rs13133618	1.00[ASN][1000 genomes]
rs13136029	1.00[ASN][1000 genomes]
rs13136222	1.00[ASN][1000 genomes]
rs13137456	1.00[ASN][1000 genomes]
rs13142662	1.00[ASN][1000 genomes]
rs13151228	1.00[ASN][1000 genomes]
rs16995958	1.00[ASN][1000 genomes]
rs17009499	1.00[ASN][1000 genomes]
rs2869276	1.00[ASN][1000 genomes]
rs33999142	1.00[ASN][1000 genomes]
rs34606166	1.00[ASN][1000 genomes]
rs34609340	1.00[ASN][1000 genomes]
rs34671717	1.00[ASN][1000 genomes]
rs34778418	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34835492	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34919300	1.00[ASN][1000 genomes]
rs35217626	1.00[ASN][1000 genomes]
rs35282096	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35503537	1.00[ASN][1000 genomes]
rs35517915	1.00[ASN][1000 genomes]
rs35622122	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35623364	1.00[ASN][1000 genomes]
rs35733791	1.00[ASN][1000 genomes]
rs35969548	1.00[ASN][1000 genomes]
rs35982510	1.00[ASN][1000 genomes]
rs36001222	1.00[ASN][1000 genomes]
rs36031693	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36102242	1.00[ASN][1000 genomes]
rs4447853	1.00[ASN][1000 genomes]
rs4546233	1.00[ASN][1000 genomes]
rs4574399	1.00[ASN][1000 genomes]
rs55921177	1.00[ASN][1000 genomes]
rs58663947	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61443844	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66473005	1.00[ASN][1000 genomes]
rs66486319	1.00[ASN][1000 genomes]
rs66923696	1.00[ASN][1000 genomes]
rs67460241	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67727084	1.00[ASN][1000 genomes]
rs67860565	1.00[ASN][1000 genomes]
rs6811593	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6814355	1.00[ASN][1000 genomes]
rs6820757	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6851823	1.00[ASN][1000 genomes]
rs7654135	1.00[ASN][1000 genomes]
rs7654315	1.00[ASN][1000 genomes]
rs7654486	1.00[ASN][1000 genomes]
rs7655243	1.00[ASN][1000 genomes]
rs7668567	1.00[ASN][1000 genomes]
rs7690449	1.00[ASN][1000 genomes]
rs7691416	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1829655	chr4:85577491-86292692	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	esv3367963	chr4:85911017-86246036	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv461566	chr4:85988032-86725502	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	nsv594747	chr4:85988032-86725502	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
6	nsv470048	chr4:85998783-86720838	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
7	nsv427685	chr4:86032872-86340548	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6820382	ARHGAP24	cis	cerebellum	SCAN
rs6820382	MRPS18C	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86043800-86044800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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