Variant report

Variant	rs72906488
Chromosome Location	chr3:47832179-47832180
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:47562617..47565330-chr3:47829264..47832654,4	MCF-7	breast:
2	chr3:47821882..47824556-chr3:47831715..47835119,3	K562	blood:
3	chr3:47830728..47832302-chr3:47832845..47835273,2	K562	blood:

Variant related genes	Relation type
ENSG00000173473	Chromatin interaction

Extended variants
information (count: 153 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:148)

rs_ID	r²[population]
rs1061003	0.86[AFR][1000 genomes]
rs10865948	0.83[AMR][1000 genomes]
rs11130143	0.82[AMR][1000 genomes]
rs11130144	0.82[AMR][1000 genomes]
rs11130145	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs11130146	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs11130147	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11130148	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11130150	0.88[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs11708849	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11710199	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs11712464	0.90[EUR][1000 genomes]
rs11714942	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11716582	0.84[AMR][1000 genomes]
rs11927129	0.90[EUR][1000 genomes]
rs12492915	0.86[AMR][1000 genomes]
rs12495204	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12497921	0.86[AMR][1000 genomes]
rs12498027	0.89[AMR][1000 genomes]
rs12633604	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12635438	0.83[EUR][1000 genomes]
rs12636863	0.82[AMR][1000 genomes]
rs13061412	0.87[AMR][1000 genomes]
rs13063042	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13064183	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13070035	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13077230	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13079407	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13081356	0.90[AMR][1000 genomes]
rs13086149	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13091913	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13094264	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13098128	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1403578	0.84[AMR][1000 genomes]
rs1403579	0.84[AMR][1000 genomes]
rs1464614	0.82[AMR][1000 genomes]
rs1486915	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1684942	0.86[AFR][1000 genomes]
rs17079785	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17290490	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2030596	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2047559	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2049301	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2101398	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2121754	0.82[AFR][1000 genomes]
rs2133601	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2140335	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs2293226	0.84[AMR][1000 genomes]
rs2351248	0.84[ASN][1000 genomes]
rs2631721	0.84[AFR][1000 genomes]
rs2882611	0.84[AMR][1000 genomes]
rs2882668	0.83[AFR][1000 genomes]
rs319680	0.85[AFR][1000 genomes]
rs319682	0.83[AFR][1000 genomes]
rs319684	0.86[AFR][1000 genomes]
rs319685	0.85[AFR][1000 genomes]
rs319687	0.85[AFR][1000 genomes]
rs319689	0.85[AFR][1000 genomes]
rs319690	0.86[AFR][1000 genomes]
rs319691	0.85[AFR][1000 genomes]
rs319693	0.86[EUR][1000 genomes]
rs319694	0.87[AFR][1000 genomes]
rs34249203	0.81[EUR][1000 genomes]
rs34351471	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34569417	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34777284	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34906469	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35148469	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35582375	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35664069	0.81[EUR][1000 genomes]
rs35698005	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3755638	0.83[AMR][1000 genomes]
rs3772399	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3772403	0.83[AMR][1000 genomes]
rs3888	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3915654	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4274776	0.82[AMR][1000 genomes]
rs4293721	0.81[AFR][1000 genomes]
rs4410463	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4858801	0.84[AMR][1000 genomes]
rs4858803	0.82[AMR][1000 genomes]
rs4858842	0.84[AMR][1000 genomes]
rs4858846	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs4858851	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4858853	0.95[EUR][1000 genomes]
rs4858857	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4858860	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4858863	0.96[EUR][1000 genomes]
rs4858871	0.81[AFR][1000 genomes]
rs55823596	0.93[EUR][1000 genomes]
rs56376646	0.90[EUR][1000 genomes]
rs56746603	0.81[AMR][1000 genomes]
rs61181421	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61620099	0.84[AMR][1000 genomes]
rs62262129	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62263561	0.93[EUR][1000 genomes]
rs62263575	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6442072	0.82[AMR][1000 genomes]
rs6442074	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs6442079	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6442081	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6442082	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6442083	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6442085	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6442086	0.96[EUR][1000 genomes]
rs6768699	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6772301	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6772396	0.82[AFR][1000 genomes]
rs6773467	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6773732	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6774170	0.83[AMR][1000 genomes]
rs6776963	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6777632	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6782998	0.82[EUR][1000 genomes]
rs6785669	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6786001	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6792350	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6792497	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6792737	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6806860	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72906474	0.84[ASN][1000 genomes]
rs73085151	0.93[EUR][1000 genomes]
rs7429162	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7612219	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7613934	0.86[AMR][1000 genomes]
rs7618758	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7619882	0.80[AFR][1000 genomes]
rs7621236	0.86[AMR][1000 genomes]
rs7624474	0.86[AMR][1000 genomes]
rs7629850	0.96[EUR][1000 genomes]
rs7631950	0.84[AMR][1000 genomes]
rs7637372	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7637950	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7638103	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7645846	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7646982	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7649393	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7653368	0.82[AFR][1000 genomes]
rs777015	0.84[AFR][1000 genomes]
rs800762	0.86[AFR][1000 genomes]
rs810334	0.84[AFR][1000 genomes]
rs868255	0.84[AMR][1000 genomes]
rs870622	0.84[AMR][1000 genomes]
rs883661	0.84[AMR][1000 genomes]
rs883663	0.81[AMR][1000 genomes]
rs9757517	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9812875	0.81[AFR][1000 genomes]
rs9850154	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003072	chr3:47673628-47869154	Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
2	nsv876758	chr3:47681881-47842234	Weak transcription Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	25 gene(s)	inside rSNPs	diseases
3	nsv834679	chr3:47749475-47924006	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	167 gene(s)	inside rSNPs	diseases
4	nsv965333	chr3:47815622-47845296	Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
5	nsv10270	chr3:47822606-47845578	Active TSS Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs72906488	MRPS18AP1	cis	Nerve Tibial	GTEx
rs72906488	ZNF589	cis	Nerve Tibial	GTEx
rs72906488	MRPS18AP1	cis	Muscle Skeletal	GTEx

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:47830800-47833200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:47831200-47832600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr3:47831200-47833200	Weak transcription	HepG2	liver
4	chr3:47831200-47842800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr3:47831800-47832200	Active TSS	Placenta	Placenta

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