Variant report

Variant	rs10072474
Chromosome Location	chr5:54083159-54083160
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10064404	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10066485	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10074079	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10075754	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13436904	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs13436919	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs4274943	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs4355479	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs4380600	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs4425466	0.90[CEU][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap]
rs4472223	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs4498222	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4526067	0.84[AMR][1000 genomes]
rs4572962	0.85[CEU][hapmap]
rs55728436	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs55944106	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs56145198	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs56298453	0.81[AMR][1000 genomes]
rs57348772	0.84[AMR][1000 genomes]
rs60775366	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs6450249	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs66812968	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6876730	0.84[AMR][1000 genomes]
rs72757444	0.80[EUR][1000 genomes]
rs7703792	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7734384	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880717	chr5:54025701-54106378	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv830300	chr5:54056300-54257344	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv3358092	chr5:54077828-54189150	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10072474	ARL15	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:54073000-54097600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr5:54080800-54083400	Enhancers	Primary B cells from cord blood	blood
3	chr5:54081400-54083200	Enhancers	Adipose Nuclei	Adipose
4	chr5:54081400-54083200	Enhancers	Brain Hippocampus Middle	brain
5	chr5:54081400-54083200	Enhancers	Fetal Heart	heart
6	chr5:54081400-54083200	Enhancers	Left Ventricle	heart
7	chr5:54081400-54083200	Enhancers	Skeletal Muscle Female	skeletal muscle
8	chr5:54081400-54083400	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr5:54081400-54083400	Enhancers	Primary B cells from peripheral blood	blood
10	chr5:54081400-54083600	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr5:54081600-54083200	Enhancers	Aorta	Aorta
12	chr5:54081600-54083400	Enhancers	Fetal Muscle Leg	muscle
13	chr5:54082000-54088600	Weak transcription	Fetal Stomach	stomach
14	chr5:54082400-54083200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
15	chr5:54082400-54087600	Weak transcription	Fetal Muscle Trunk	muscle
16	chr5:54082800-54083400	Enhancers	GM12878-XiMat	blood
17	chr5:54083000-54083400	Enhancers	Lung	lung

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