Variant report

Variant	rs1877325
Chromosome Location	chr10:23794804-23794805
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:23793550..23795585-chr10:23803256..23805113,2	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10828465	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828466	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828467	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828469	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10828470	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11013520	0.95[CEU][hapmap];0.90[CHB][hapmap]
rs11013531	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11013540	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11013541	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11013543	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11013545	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12244668	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12254275	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12261799	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12263327	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12266577	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12266853	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12767397	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs1337324	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1337325	0.92[EUR][1000 genomes]
rs1546521	0.84[EUR][1000 genomes]
rs1856113	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1877326	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1877327	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1877328	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1985697	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2055920	0.84[EUR][1000 genomes]
rs2055921	0.84[EUR][1000 genomes]
rs2366161	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2366162	0.86[EUR][1000 genomes]
rs2886588	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4008949	0.92[EUR][1000 genomes]
rs4333914	0.95[CEU][hapmap];0.90[CHB][hapmap];0.96[CHD][hapmap]
rs4359093	0.93[EUR][1000 genomes]
rs4434903	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs4564227	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4747477	0.84[EUR][1000 genomes]
rs4747478	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs4748897	0.83[EUR][1000 genomes]
rs4748898	0.91[CEU][hapmap];0.90[TSI][hapmap];0.84[EUR][1000 genomes]
rs4748902	0.91[EUR][1000 genomes]
rs4990826	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6482284	0.84[EUR][1000 genomes]
rs6482285	0.84[EUR][1000 genomes]
rs6482286	0.84[EUR][1000 genomes]
rs6482290	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6482291	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6482292	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6482293	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7071059	0.92[EUR][1000 genomes]
rs7083824	0.84[EUR][1000 genomes]
rs7085999	0.80[EUR][1000 genomes]
rs7087736	0.83[EUR][1000 genomes]
rs7097155	0.92[EUR][1000 genomes]
rs7899130	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7901238	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7903159	0.82[EUR][1000 genomes]
rs7904301	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7907290	0.86[EUR][1000 genomes]
rs7908703	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7908715	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7913300	0.84[EUR][1000 genomes]
rs7913401	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7920535	0.81[GIH][hapmap]
rs7921141	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs983989	0.92[EUR][1000 genomes]
rs983990	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][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	nsv831811	chr10:23734326-23913370	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1877325	MYO3A	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:23793800-23801200	Weak transcription	K562	blood
2	chr10:23794600-23795000	Enhancers	Stomach Mucosa	stomach
3	chr10:23794600-23795200	Enhancers	Pancreatic Islets	Pancreatic Islet

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