Variant report

Variant	rs4886412
Chromosome Location	chr15:74105060-74105061
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11072443	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11072447	1.00[JPT][hapmap]
rs11632129	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11636136	0.86[JPT][hapmap]
rs12148568	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12909231	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12910560	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12914845	0.91[ASN][1000 genomes]
rs1377060	0.94[ASN][1000 genomes]
rs1452385	0.81[EUR][1000 genomes]
rs1452386	0.81[EUR][1000 genomes]
rs1452387	0.81[EUR][1000 genomes]
rs1478558	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17188111	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1823718	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1901571	0.85[ASN][1000 genomes]
rs2045930	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2045931	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2198295	0.94[ASN][1000 genomes]
rs2415231	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28379895	0.81[EUR][1000 genomes]
rs34222037	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs35814490	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4338750	0.81[EUR][1000 genomes]
rs4366671	0.81[EUR][1000 genomes]
rs4457949	0.81[EUR][1000 genomes]
rs4633670	0.81[EUR][1000 genomes]
rs4886418	0.94[ASN][1000 genomes]
rs4886419	0.94[ASN][1000 genomes]
rs4886643	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4886644	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4886645	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4886646	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4886694	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4886698	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62007073	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6495081	0.94[ASN][1000 genomes]
rs71399764	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7181093	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs746653	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs746654	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8023709	0.94[ASN][1000 genomes]
rs896593	0.81[EUR][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	nsv1043335	chr15:74078689-74241186	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4886412	STOML1	cis	parietal	SCAN
rs4886412	PAQR5	cis	cerebellum	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74097800-74110200	Weak transcription	Brain Germinal Matrix	brain
2	chr15:74100200-74105400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:74103200-74105400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr15:74104000-74105200	Bivalent Enhancer	Fetal Stomach	stomach
5	chr15:74104000-74106800	Enhancers	Fetal Muscle Trunk	muscle
6	chr15:74104000-74107400	Enhancers	Fetal Muscle Leg	muscle
7	chr15:74104200-74105800	Enhancers	Fetal Lung	lung
8	chr15:74104800-74105200	Enhancers	Ovary	ovary
9	chr15:74104800-74105800	Enhancers	Fetal Kidney	kidney
10	chr15:74104800-74106000	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr15:74104800-74106200	Enhancers	Fetal Brain Female	brain
12	chr15:74104800-74107000	Enhancers	Fetal Brain Male	brain
13	chr15:74105000-74105200	Enhancers	Brain Hippocampus Middle	brain
14	chr15:74105000-74105200	Enhancers	Spleen	Spleen
15	chr15:74105000-74105600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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