Variant report

Variant	rs12246561
Chromosome Location	chr10:112835109-112835110
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr10:112835020-112835170	SK-N-SH_RA	brain:	n/a	n/a

Variant related genes	Relation type
ADRA2A	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10787286	0.81[AFR][1000 genomes]
rs10787291	0.87[ASW][hapmap]
rs10787293	0.87[ASW][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs10787299	0.86[AFR][1000 genomes]
rs10885059	1.00[YRI][hapmap]
rs10885064	0.89[AFR][1000 genomes]
rs10885071	0.94[AFR][1000 genomes]
rs10885073	0.80[AFR][1000 genomes]
rs10885075	0.81[CHD][hapmap];1.00[JPT][hapmap]
rs10885076	0.81[CHD][hapmap];0.85[JPT][hapmap]
rs11195381	1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs11195387	1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs11195390	0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.89[AFR][1000 genomes]
rs11195391	0.82[CEU][hapmap];0.80[AFR][1000 genomes]
rs11195398	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs12242177	0.92[AFR][1000 genomes]
rs12242928	0.92[AFR][1000 genomes]
rs12249031	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12253351	0.80[AFR][1000 genomes]
rs12776359	0.89[AFR][1000 genomes]
rs1571239	1.00[JPT][hapmap]
rs17186196	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2146544	0.84[LWK][hapmap];0.82[YRI][hapmap]
rs34893229	0.86[AFR][1000 genomes]
rs3750619	0.92[LWK][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs61864641	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6421360	1.00[JPT][hapmap]
rs6585026	0.85[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]
rs7070962	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs7074629	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7074653	0.83[AFR][1000 genomes]
rs7075507	0.82[ASN][1000 genomes]
rs7089069	0.83[AFR][1000 genomes]
rs7089193	1.00[JPT][hapmap]
rs7089687	0.87[ASW][hapmap];0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs7096359	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7922142	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs9663346	0.89[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498045	chr10:112794518-113353550	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv825566	chr10:112830014-112871333	Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv527400	chr10:112833561-112843085	Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv896004	chr10:112834763-112842961	Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112829800-112835600	Weak transcription	Pancreas	Pancrea
2	chr10:112831400-112835600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:112834400-112835400	Enhancers	Fetal Brain Female	brain

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