Variant report

Variant	rs4282209
Chromosome Location	chr4:76919536-76919537
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:76918990..76920768-chr4:76987406..76989300,2	MCF-7	breast:
2	chr4:76918050..76921353-chr4:76922033..76925702,4	K562	blood:
3	chr4:76918050..76921353-chr4:76922033..76925702,3	K562	blood:
4	chr4:76919294..76923061-chr4:76987395..76990335,3	MCF-7	breast:
5	chr4:76912055..76913763-chr4:76918600..76921053,2	K562	blood:

Variant related genes	Relation type
ENSG00000198301	Chromatin interaction

Extended variants
information (count: 189 )
Associated
traits (count: 15 )

rSNPs within LD-proxies of this variant (count:186)

rs_ID	r²[population]
rs10000130	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10002099	0.85[ASN][1000 genomes]
rs10003240	0.97[ASN][1000 genomes]
rs10003382	0.97[ASN][1000 genomes]
rs10008757	0.88[CEU][hapmap];0.81[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10010920	0.85[ASN][1000 genomes]
rs10014049	0.97[ASN][1000 genomes]
rs10014837	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10017431	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10017484	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10021768	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10025102	0.97[ASN][1000 genomes]
rs10025302	0.85[ASN][1000 genomes]
rs10031452	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10033061	0.82[ASN][1000 genomes]
rs10034055	0.85[ASN][1000 genomes]
rs10336	0.86[YRI][hapmap];0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10856873	0.85[ASN][1000 genomes]
rs10856875	1.00[JPT][hapmap]
rs11097189	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11097212	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11097219	0.82[ASN][1000 genomes]
rs11097223	1.00[CHB][hapmap]
rs11732759	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs11931349	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11947509	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12502834	0.85[ASN][1000 genomes]
rs13111710	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13111790	0.85[ASN][1000 genomes]
rs13113455	0.85[ASN][1000 genomes]
rs13113632	0.85[ASN][1000 genomes]
rs13125558	0.92[CEU][hapmap];1.00[JPT][hapmap]
rs13126007	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13128319	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs13130018	0.97[ASN][1000 genomes]
rs13130221	0.97[ASN][1000 genomes]
rs13132564	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13138223	0.83[YRI][hapmap]
rs1554013	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17288671	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2242471	0.96[CEU][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2242473	0.96[CEU][hapmap];0.86[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2242474	0.96[CEU][hapmap];0.86[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2273	0.92[CEU][hapmap];0.86[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2292533	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28433437	0.85[ASN][1000 genomes]
rs28505472	0.85[ASN][1000 genomes]
rs28548768	0.85[ASN][1000 genomes]
rs28642977	0.85[ASN][1000 genomes]
rs28681066	0.91[ASN][1000 genomes]
rs28681694	0.85[ASN][1000 genomes]
rs28896243	0.85[ASN][1000 genomes]
rs3921	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4129781	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4241578	0.97[ASN][1000 genomes]
rs4241579	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4241580	0.97[ASN][1000 genomes]
rs4241581	0.85[ASN][1000 genomes]
rs4257674	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4302486	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4304003	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4309862	0.97[ASN][1000 genomes]
rs4318674	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4333205	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4337760	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4345214	0.81[ASN][1000 genomes]
rs4356932	0.97[ASN][1000 genomes]
rs4359936	0.85[ASN][1000 genomes]
rs4359937	0.85[ASN][1000 genomes]
rs4371639	0.97[ASN][1000 genomes]
rs4380549	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4386624	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4394024	0.82[ASN][1000 genomes]
rs4401475	0.85[ASN][1000 genomes]
rs4406046	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4417995	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4422436	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4432767	0.85[ASN][1000 genomes]
rs4456983	0.97[ASN][1000 genomes]
rs4478212	0.97[ASN][1000 genomes]
rs4512021	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4535358	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4541535	0.85[ASN][1000 genomes]
rs4543142	0.82[ASN][1000 genomes]
rs4543147	0.85[ASN][1000 genomes]
rs4547819	0.85[ASN][1000 genomes]
rs4580676	0.97[ASN][1000 genomes]
rs4583787	0.97[ASN][1000 genomes]
rs4593163	0.85[ASN][1000 genomes]
rs4616778	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4619915	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4637430	0.85[ASN][1000 genomes]
rs4859413	0.96[CEU][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4859414	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4859415	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4859416	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4859581	0.92[CEU][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4859582	0.92[CEU][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4859584	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4859586	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4859587	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4859588	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4859589	0.86[ASN][1000 genomes]
rs4859590	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs4859591	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4859594	0.89[ASN][1000 genomes]
rs4859595	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4859597	0.97[ASN][1000 genomes]
rs4859598	0.97[ASN][1000 genomes]
rs4859599	0.89[ASN][1000 genomes]
rs4859600	0.97[ASN][1000 genomes]
rs4859603	0.85[ASN][1000 genomes]
rs4859604	0.85[ASN][1000 genomes]
rs4859605	0.85[ASN][1000 genomes]
rs4859608	1.00[JPT][hapmap]
rs5005114	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6532078	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6532083	1.00[JPT][hapmap];0.86[YRI][hapmap];0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6532086	0.97[ASN][1000 genomes]
rs6532093	0.97[ASN][1000 genomes]
rs6532101	0.91[ASN][1000 genomes]
rs6532103	0.91[ASN][1000 genomes]
rs6532105	0.84[ASN][1000 genomes]
rs6532111	1.00[CHB][hapmap];0.97[ASN][1000 genomes]
rs6532114	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6532121	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6532130	0.82[ASN][1000 genomes]
rs6532142	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6532156	0.85[ASN][1000 genomes]
rs6532157	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6532158	0.85[ASN][1000 genomes]
rs6532159	0.85[ASN][1000 genomes]
rs6532160	0.85[ASN][1000 genomes]
rs6532161	0.85[ASN][1000 genomes]
rs6532163	0.85[ASN][1000 genomes]
rs6532166	0.85[ASN][1000 genomes]
rs6532172	0.82[ASN][1000 genomes]
rs6811252	0.85[ASN][1000 genomes]
rs6811301	0.82[ASN][1000 genomes]
rs6814012	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6814014	1.00[JPT][hapmap]
rs6814817	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6816898	1.00[CHB][hapmap]
rs6819597	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6819920	0.97[ASN][1000 genomes]
rs6825045	0.97[ASN][1000 genomes]
rs6826085	0.92[CEU][hapmap];0.86[YRI][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6826163	0.82[ASN][1000 genomes]
rs6826398	0.81[ASN][1000 genomes]
rs6827767	0.85[ASN][1000 genomes]
rs6828596	0.97[ASN][1000 genomes]
rs6829896	0.85[ASN][1000 genomes]
rs6835736	0.85[ASN][1000 genomes]
rs6837830	0.85[ASN][1000 genomes]
rs6840980	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6844097	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6845154	0.81[ASN][1000 genomes]
rs6845396	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6848603	0.83[ASN][1000 genomes]
rs6848620	0.81[ASN][1000 genomes]
rs6850515	0.85[ASN][1000 genomes]
rs6850760	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6852075	0.97[ASN][1000 genomes]
rs6856681	0.85[ASN][1000 genomes]
rs6856958	0.97[ASN][1000 genomes]
rs6857372	0.85[ASN][1000 genomes]
rs7376624	0.85[ASN][1000 genomes]
rs73825703	0.84[ASN][1000 genomes]
rs7436021	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7436646	0.97[ASN][1000 genomes]
rs7655350	0.85[ASN][1000 genomes]
rs7664354	0.85[ASN][1000 genomes]
rs7665152	0.97[ASN][1000 genomes]
rs7670789	1.00[CHB][hapmap];0.97[ASN][1000 genomes]
rs7674409	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7683657	0.85[ASN][1000 genomes]
rs7684461	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7684889	0.85[ASN][1000 genomes]
rs7688306	0.85[ASN][1000 genomes]
rs7699624	0.85[ASN][1000 genomes]
rs8878	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9307050	0.92[CEU][hapmap];0.86[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9884374	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9992952	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9995007	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9999755	0.85[ASN][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	esv3353539	chr4:76530136-76993859	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv529613	chr4:76654941-77081576	Flanking Active TSS Weak transcription Genic enhancers Strong transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1004627	chr4:76793910-76999584	Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:15)

SNP	Gene	Cis/trans	Tissue	Source
rs4282209	NAAA	cis	Heart Left Ventricle	GTEx
rs4282209	ART3	cis	Nerve Tibial	GTEx
rs4282209	NAAA	cis	lung	GTEx
rs4282209	NAAA	cis	Artery Tibial	GTEx
rs4282209	NAAA	cis	Whole Blood	GTEx
rs4282209	CXCL10	Cis_1M	lymphoblastoid	RTeQTL
rs4282209	NAAA	cis	Nerve Tibial	GTEx
rs4282209	ASAHL	Cis_1M	lymphoblastoid	RTeQTL
rs4282209	NAAA	cis	Skin Sun Exposed Lower leg	GTEx
rs4282209	NAAA	cis	Artery Aorta	GTEx
rs4282209	NAAA	cis	Esophagus Mucosa	GTEx
rs4282209	NAAA	cis	Esophagus Muscularis	GTEx
rs4282209	NAAA	cis	Muscle Skeletal	GTEx
rs4282209	NAAA	cis	Adipose Subcutaneous	GTEx
rs4282209	ASAHL	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:76912400-76932200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:76919000-76920400	Weak transcription	Fetal Intestine Small	intestine
3	chr4:76919400-76920600	Weak transcription	Fetal Intestine Large	intestine

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