Variant report

Variant	rs4574603
Chromosome Location	chr6:87816905-87816906
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:87814512..87817505-chr6:87862895..87865178,2	K562	blood:

Variant related genes	Relation type
ENSG00000272008	Chromatin interaction

Extended variants
information (count: 191 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:189)

rs_ID	r²[population]
rs1075068	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1080595	0.82[ASN][1000 genomes]
rs1080596	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12176253	0.86[EUR][1000 genomes]
rs12664578	0.82[ASN][1000 genomes]
rs13191422	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13201289	0.81[CEU][hapmap]
rs1590429	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1610331	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1813847	0.84[ASN][1000 genomes]
rs1813848	0.84[ASN][1000 genomes]
rs1886751	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.86[ASN][1000 genomes]
rs1886752	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1925687	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925688	0.84[ASN][1000 genomes]
rs1925689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1925695	1.00[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.80[ASN][1000 genomes]
rs1977300	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1980790	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1980791	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1980792	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1998765	0.85[ASN][1000 genomes]
rs2025489	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2025630	0.85[ASN][1000 genomes]
rs2031518	0.82[ASN][1000 genomes]
rs2031519	0.85[ASN][1000 genomes]
rs2031520	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2031521	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2147917	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2147918	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2147920	0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs2147921	0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs2182181	0.80[ASN][1000 genomes]
rs2240460	0.81[EUR][1000 genomes]
rs35788380	0.86[EUR][1000 genomes]
rs3734187	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.86[EUR][1000 genomes]
rs3812130	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs3812132	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs3846773	0.87[EUR][1000 genomes]
rs3846774	0.87[EUR][1000 genomes]
rs3846775	0.87[EUR][1000 genomes]
rs3846776	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs3857483	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs3857484	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes]
rs3857488	0.95[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap]
rs3903920	0.95[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs3904088	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs3932521	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4099964	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs4110984	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs4267927	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4269346	0.84[ASN][1000 genomes]
rs4391234	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs440296	0.84[CEU][hapmap]
rs4489129	0.84[ASN][1000 genomes]
rs4533962	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4540237	0.84[ASN][1000 genomes]
rs4591818	0.87[EUR][1000 genomes]
rs4605853	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs4706289	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[ASN][1000 genomes]
rs4707345	0.81[CEU][hapmap]
rs4707346	0.95[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.80[ASN][1000 genomes]
rs4707347	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs4707348	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes]
rs4707351	0.95[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs4707355	0.81[CEU][hapmap]
rs4707357	0.85[EUR][1000 genomes]
rs4707358	0.95[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap]
rs62439492	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62439493	0.81[ASN][1000 genomes]
rs6454581	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap]
rs6454584	0.84[ASN][1000 genomes]
rs6454587	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.84[ASN][1000 genomes]
rs6454588	0.84[ASN][1000 genomes]
rs6454589	0.86[EUR][1000 genomes]
rs6454590	0.80[ASN][1000 genomes]
rs6454591	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6454592	0.81[ASN][1000 genomes]
rs6454593	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6454596	0.85[EUR][1000 genomes]
rs6454597	0.84[EUR][1000 genomes]
rs6454599	0.85[EUR][1000 genomes]
rs6899394	0.85[EUR][1000 genomes]
rs6904310	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[ASN][1000 genomes]
rs6907805	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6908834	0.81[CEU][hapmap]
rs6909021	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.84[ASN][1000 genomes]
rs6909200	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.82[ASN][1000 genomes]
rs6910991	0.87[EUR][1000 genomes]
rs6912970	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6913159	0.81[CEU][hapmap]
rs6913932	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs6916994	0.85[EUR][1000 genomes]
rs6917455	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6917931	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921007	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs6921619	0.85[ASN][1000 genomes]
rs6926563	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6926686	0.81[CEU][hapmap]
rs6926831	0.95[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs6926838	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6927748	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6929920	0.85[ASN][1000 genomes]
rs6932678	0.85[EUR][1000 genomes]
rs6933046	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs6934603	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs6934717	0.85[ASN][1000 genomes]
rs6937874	0.85[EUR][1000 genomes]
rs6938885	0.82[CEU][hapmap]
rs6939075	0.84[CEU][hapmap]
rs6940325	0.81[CEU][hapmap]
rs6940544	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs7453986	0.85[EUR][1000 genomes]
rs7739034	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[ASN][1000 genomes]
rs7739726	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7742478	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7742710	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7748191	0.82[ASN][1000 genomes]
rs7751029	0.81[ASN][1000 genomes]
rs7752414	0.81[CEU][hapmap]
rs7752485	0.95[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs7753030	0.85[EUR][1000 genomes]
rs7755883	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs7757199	0.84[ASN][1000 genomes]
rs7757827	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs7758618	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7760278	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7761970	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7762640	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7763365	0.82[ASN][1000 genomes]
rs7763371	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7766324	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7767449	0.82[ASN][1000 genomes]
rs7768575	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7774080	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774603	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs7774771	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7774872	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7776407	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9294367	0.84[ASN][1000 genomes]
rs9294370	0.83[ASN][1000 genomes]
rs9294371	0.81[ASN][1000 genomes]
rs9294372	0.86[ASN][1000 genomes]
rs9294374	0.87[EUR][1000 genomes]
rs9294376	0.81[CEU][hapmap]
rs9344676	1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9344677	0.86[ASN][1000 genomes]
rs9344690	1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs9344691	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9344693	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs9344695	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs9344696	0.86[EUR][1000 genomes]
rs9351114	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9351117	0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs9353450	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9353452	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9353453	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9353455	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9353456	0.85[ASN][1000 genomes]
rs9353462	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9353463	0.82[ASN][1000 genomes]
rs9353464	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs9353465	0.95[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap]
rs9353466	0.80[EUR][1000 genomes]
rs9353468	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs9353473	0.85[EUR][1000 genomes]
rs9359731	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9359734	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9359736	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9359743	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs9362398	0.85[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs9362401	0.82[ASN][1000 genomes]
rs9362408	0.82[ASN][1000 genomes]
rs9362411	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs9362413	0.88[EUR][1000 genomes]
rs9362415	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.86[EUR][1000 genomes]
rs9362417	0.85[EUR][1000 genomes]
rs9444479	1.00[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.86[ASN][1000 genomes]
rs9444491	0.81[CEU][hapmap]
rs9450620	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9450630	0.83[CEU][hapmap]
rs9450636	0.81[CEU][hapmap]
rs9450638	0.81[CEU][hapmap]
rs9450647	0.85[EUR][1000 genomes]
rs9450650	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs9450651	0.81[CEU][hapmap]
rs9450652	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs9450653	0.81[CEU][hapmap]
rs994170	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024751	chr6:87433199-87908721	Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv604114	chr6:87816905-87906053	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs4574603	C6orf162	cis	cerebellum	SCAN
rs4574603	C6orf164	cis	Whole Blood	GTEx
rs4574603	C6orf162	cis	parietal	SCAN
rs4574603	C6orf162	Cis_1M	lymphoblastoid	RTeQTL
rs4574603	SLC35A1	Cis_1M	lymphoblastoid	RTeQTL
rs4574603	C6orf164	cis	Esophagus Muscularis	GTEx
rs4574603	C6orf163	Cis_1M	lymphoblastoid	RTeQTL
rs4574603	Hs.485895	cis	multi-tissue	Pritchard
rs4574603	SLC35A1	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87815400-87824800	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr6:87815800-87817800	Weak transcription	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links