Variant report

Variant	rs7758798
Chromosome Location	chr6:28749012-28749013
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28748557..28751471-chr6:28751762..28754596,2	MCF-7	breast:
2	chr6:28746864..28751693-chr6:28754692..28757727,4	K562	blood:
3	chr6:28686115..28688745-chr6:28748402..28751261,2	K562	blood:
4	chr6:28673375..28676258-chr6:28747112..28749974,2	K562	blood:

Variant related genes	Relation type
ENSG00000235559	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 5 )

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

rs_ID	r²[population]
rs1233614	1.00[ASN][1000 genomes]
rs17280797	0.80[AMR][1000 genomes]
rs17280818	0.80[AMR][1000 genomes]
rs17281186	0.80[AMR][1000 genomes]
rs17346574	0.80[AMR][1000 genomes]
rs2754761	0.90[AFR][1000 genomes]
rs2754762	0.90[AFR][1000 genomes]
rs2765223	0.90[AFR][1000 genomes]
rs3999045	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55641015	0.90[AMR][1000 genomes]
rs55659253	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55764335	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55891766	0.80[AMR][1000 genomes]
rs56003969	0.90[AMR][1000 genomes]
rs56030816	0.90[AFR][1000 genomes]
rs56098960	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56165011	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56296645	0.90[AMR][1000 genomes]
rs56374518	0.90[AFR][1000 genomes]
rs56384403	1.00[AMR][1000 genomes]
rs57170714	0.85[AMR][1000 genomes]
rs57693980	0.90[AMR][1000 genomes]
rs57748269	0.90[AMR][1000 genomes]
rs57791058	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57965355	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58238888	1.00[AMR][1000 genomes]
rs58258185	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59233561	0.90[AMR][1000 genomes]
rs59475656	0.90[AMR][1000 genomes]
rs59959723	0.80[AMR][1000 genomes]
rs60252686	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60311527	1.00[AMR][1000 genomes]
rs61094745	0.80[AMR][1000 genomes]
rs61208746	1.00[AMR][1000 genomes]
rs61703239	0.90[AMR][1000 genomes]
rs6901325	0.85[AMR][1000 genomes]
rs6905871	0.85[AMR][1000 genomes]
rs6906105	0.85[AMR][1000 genomes]
rs6906506	0.85[AMR][1000 genomes]
rs6909960	1.00[AMR][1000 genomes]
rs6916286	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923795	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6938988	0.90[AFR][1000 genomes]
rs6939948	0.90[AFR][1000 genomes]
rs7738101	0.85[AMR][1000 genomes]
rs7742889	0.90[AMR][1000 genomes]
rs7748319	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7751451	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751884	1.00[AMR][1000 genomes]
rs7754365	0.85[AMR][1000 genomes]
rs7760656	0.80[AMR][1000 genomes]
rs7765829	0.80[AMR][1000 genomes]
rs7766599	0.80[AMR][1000 genomes]
rs7772111	1.00[AMR][1000 genomes]
rs7772682	0.95[AMR][1000 genomes]
rs9257182	0.98[ASN][1000 genomes]
rs9688414	1.00[AMR][1000 genomes]
rs9767343	0.91[AMR][1000 genomes]
rs9767359	1.00[AMR][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	nsv534089	chr6:28636972-28841640	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs7758798	ZSCAN23	cis	cerebellum	SCAN
rs7758798	FAM65B	cis	cerebellum	SCAN
rs7758798	ZKSCAN3	cis	cerebellum	SCAN
rs7758798	ZNF323	cis	cerebellum	SCAN
rs7758798	ZNF323	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28749000-28749400	Flanking Active TSS	K562	blood

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