Variant report

Variant	rs2820696
Chromosome Location	chr1:215862105-215862106
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10864183	0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11120598	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11120605	0.84[JPT][hapmap]
rs11120606	0.84[JPT][hapmap]
rs11578710	0.90[CHB][hapmap];0.98[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12140451	0.84[JPT][hapmap]
rs12408717	0.84[JPT][hapmap]
rs1342765	0.84[JPT][hapmap]
rs2364859	0.81[CHB][hapmap];0.89[JPT][hapmap]
rs2820675	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2820691	0.93[ASW][hapmap];0.92[CEU][hapmap];0.93[GIH][hapmap];0.84[JPT][hapmap];0.98[LWK][hapmap];0.82[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap]
rs2820692	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs2820693	0.93[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs2820694	0.87[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap]
rs4372227	0.84[JPT][hapmap]
rs4375237	0.90[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4655419	0.85[CHB][hapmap];0.88[JPT][hapmap]
rs7546433	0.81[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.89[JPT][hapmap]

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	nsv430324	chr1:215649163-216082605	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv873171	chr1:215825167-215925167	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv2763680	chr1:215855883-215870683	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv549184	chr1:215860464-215862899	Inactive region	Chromatin interactive region	n/a	n/a	diseases
5	nsv549185	chr1:215860464-215863578	Inactive region	Chromatin interactive region	n/a	n/a	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2820696	ATF3	cis	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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