Variant report

Variant	rs4865870
Chromosome Location	chr5:54083387-54083388
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 117 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:113)

rs_ID	r²[population]
rs10036257	0.88[ASN][1000 genomes]
rs10036606	0.88[ASN][1000 genomes]
rs10039924	0.92[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10042288	0.88[ASN][1000 genomes]
rs10042394	0.88[ASN][1000 genomes]
rs10042495	0.88[ASN][1000 genomes]
rs10045175	0.88[ASN][1000 genomes]
rs10045765	0.88[ASN][1000 genomes]
rs10045790	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10050561	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10053168	0.90[ASN][1000 genomes]
rs10057871	0.88[ASN][1000 genomes]
rs10058571	0.88[ASN][1000 genomes]
rs10058862	0.88[ASN][1000 genomes]
rs10061958	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10066294	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10066622	0.88[ASN][1000 genomes]
rs10068073	1.00[ASN][1000 genomes]
rs10071183	0.99[ASN][1000 genomes]
rs10073662	0.99[ASN][1000 genomes]
rs10073721	0.99[ASN][1000 genomes]
rs10073837	0.90[ASN][1000 genomes]
rs10434559	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10461588	0.90[ASN][1000 genomes]
rs10471923	0.88[ASN][1000 genomes]
rs1073709	0.88[ASN][1000 genomes]
rs10805463	0.90[ASN][1000 genomes]
rs10805469	0.86[ASN][1000 genomes]
rs10940427	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10940428	0.88[ASN][1000 genomes]
rs11950757	0.99[ASN][1000 genomes]
rs11952681	0.83[ASN][1000 genomes]
rs11959080	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12514244	0.88[ASN][1000 genomes]
rs12515327	0.86[ASN][1000 genomes]
rs12520494	0.86[ASN][1000 genomes]
rs12522199	0.88[ASN][1000 genomes]
rs13155441	0.88[ASN][1000 genomes]
rs13161386	0.83[ASN][1000 genomes]
rs13161718	0.83[ASN][1000 genomes]
rs13167527	0.88[ASN][1000 genomes]
rs13171964	0.83[ASN][1000 genomes]
rs13173669	0.88[ASN][1000 genomes]
rs13180287	0.88[ASN][1000 genomes]
rs13186826	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16883428	0.81[ASN][1000 genomes]
rs1867685	0.91[ASN][1000 genomes]
rs4074332	0.86[JPT][hapmap]
rs4242044	0.99[ASN][1000 genomes]
rs4242045	0.88[ASN][1000 genomes]
rs4242046	0.86[ASN][1000 genomes]
rs4242047	0.86[ASN][1000 genomes]
rs4242048	0.83[ASN][1000 genomes]
rs4282277	1.00[ASN][1000 genomes]
rs4289528	0.86[ASN][1000 genomes]
rs4290968	0.90[ASN][1000 genomes]
rs4292417	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4298212	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4320207	0.86[ASN][1000 genomes]
rs4336310	0.90[ASN][1000 genomes]
rs4336311	0.83[ASN][1000 genomes]
rs4356994	0.99[ASN][1000 genomes]
rs4362906	0.88[ASN][1000 genomes]
rs4437335	0.83[ASN][1000 genomes]
rs4451013	0.85[ASN][1000 genomes]
rs4451014	0.83[ASN][1000 genomes]
rs4457032	0.90[ASN][1000 genomes]
rs4498213	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4515247	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4519880	0.88[ASN][1000 genomes]
rs4527555	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4527556	0.88[ASN][1000 genomes]
rs4582235	0.83[ASN][1000 genomes]
rs4591702	0.88[ASN][1000 genomes]
rs4610422	0.88[ASN][1000 genomes]
rs4645296	0.81[ASN][1000 genomes]
rs4865586	0.86[JPT][hapmap]
rs4865872	0.99[ASN][1000 genomes]
rs4865873	0.90[ASN][1000 genomes]
rs4865874	0.90[ASN][1000 genomes]
rs4865875	0.88[ASN][1000 genomes]
rs4865876	0.88[ASN][1000 genomes]
rs4865877	0.83[ASN][1000 genomes]
rs59595173	0.89[ASN][1000 genomes]
rs59664922	0.94[ASN][1000 genomes]
rs60548640	0.92[ASN][1000 genomes]
rs6450247	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6450248	0.94[ASN][1000 genomes]
rs6450251	0.88[ASN][1000 genomes]
rs6450252	0.88[ASN][1000 genomes]
rs6450253	0.88[ASN][1000 genomes]
rs6860729	1.00[ASN][1000 genomes]
rs6860824	0.86[JPT][hapmap]
rs6863705	0.88[CHB][hapmap];0.90[CHD][hapmap];0.92[JPT][hapmap];0.86[MEX][hapmap];0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6867867	0.99[ASN][1000 genomes]
rs6887578	0.83[ASN][1000 genomes]
rs6892315	0.99[ASN][1000 genomes]
rs6899052	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73126822	0.94[ASN][1000 genomes]
rs73126828	0.94[ASN][1000 genomes]
rs73126830	0.94[ASN][1000 genomes]
rs7446423	0.88[ASN][1000 genomes]
rs7446869	0.83[ASN][1000 genomes]
rs7709225	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7709401	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7726707	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7728303	0.88[ASN][1000 genomes]
rs7731103	0.85[ASN][1000 genomes]
rs9292072	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9292073	0.99[ASN][1000 genomes]
rs9292074	0.88[ASN][1000 genomes]
rs9687636	0.88[ASN][1000 genomes]
rs9968754	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
4	esv2754136	chr5:54083387-54107727	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4865870	ARL15	cis	cerebellum	SCAN

Chromatin state (count:15 , 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	chr5:54081400-54083400	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr5:54081400-54083400	Enhancers	Primary B cells from peripheral blood	blood
5	chr5:54081400-54083600	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr5:54081600-54083400	Enhancers	Fetal Muscle Leg	muscle
7	chr5:54082000-54088600	Weak transcription	Fetal Stomach	stomach
8	chr5:54082400-54087600	Weak transcription	Fetal Muscle Trunk	muscle
9	chr5:54082800-54083400	Enhancers	GM12878-XiMat	blood
10	chr5:54083000-54083400	Enhancers	Lung	lung
11	chr5:54083200-54083400	Enhancers	Colonic Mucosa	Colon
12	chr5:54083200-54083600	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr5:54083200-54084400	Weak transcription	Left Ventricle	heart
14	chr5:54083200-54088000	Weak transcription	Fetal Heart	heart
15	chr5:54083200-54088800	Weak transcription	Aorta	Aorta

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