Variant report

Variant	rs6454600
Chromosome Location	chr6:88004585-88004586
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:88003084..88004610-chr6:88029635..88031151,2	K562	blood:
2	chr6:87998545..88000520-chr6:88004269..88006989,2	K562	blood:
3	chr6:88002598..88005293-chr6:88032419..88034382,2	MCF-7	breast:
4	chr6:88003924..88006033-chr6:88032323..88034083,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111850	Chromatin interaction
ENSG00000226524	Chromatin interaction
ENSG00000164411	Chromatin interaction

Extended variants
information (count: 220 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:220)

rs_ID	r²[population]
rs1075068	0.88[EUR][1000 genomes]
rs107689	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs107690	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1080595	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1080596	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1201409	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12176253	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190280	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12664578	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13191422	0.88[EUR][1000 genomes]
rs1590429	0.87[EUR][1000 genomes]
rs1610331	0.89[EUR][1000 genomes]
rs173333	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1753154	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1813847	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1813848	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs183599	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1886751	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1886752	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1925687	0.88[EUR][1000 genomes]
rs1925688	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1925695	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1977300	0.88[EUR][1000 genomes]
rs1980790	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1980791	0.83[ASN][1000 genomes]
rs1980792	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1998765	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2025489	0.87[EUR][1000 genomes]
rs2025630	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2031518	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2031519	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2031520	0.88[EUR][1000 genomes]
rs2031521	0.88[EUR][1000 genomes]
rs2147917	0.83[ASN][1000 genomes]
rs2147918	0.85[ASN][1000 genomes]
rs2147919	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2147920	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2147921	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2182181	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2240459	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2240460	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs242267	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs242270	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs242278	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs242279	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs242280	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs242281	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs242283	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs242285	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs242286	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs242287	0.89[EUR][1000 genomes]
rs2474349	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2985039	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs369674	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3734187	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs373646	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs376633	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3812130	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3812132	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs381782	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3846773	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3846774	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3846775	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3846776	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3857483	0.88[ASN][1000 genomes]
rs3857484	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3857485	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3857488	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs390272	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3903920	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3904088	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3932521	0.88[EUR][1000 genomes]
rs395358	0.81[EUR][1000 genomes]
rs4099964	0.84[ASN][1000 genomes]
rs4110984	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4110985	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4267927	0.88[EUR][1000 genomes]
rs4269346	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4391234	0.88[EUR][1000 genomes]
rs445434	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs446851	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs447077	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs448580	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4489129	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs451089	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs451465	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs451829	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4533962	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4540237	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4591818	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4605853	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4706289	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4707346	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4707347	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4707348	0.86[ASN][1000 genomes]
rs4707351	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4707352	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4707356	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4707357	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4707358	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs586771	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62439493	0.86[EUR][1000 genomes]
rs6454583	0.86[EUR][1000 genomes]
rs6454584	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6454587	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6454588	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6454590	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6454591	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6454592	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6454593	0.85[ASN][1000 genomes]
rs6454594	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6454595	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6454596	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6454597	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6454598	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6454599	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6899394	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6904310	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6909021	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6909200	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6910991	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6912970	0.88[EUR][1000 genomes]
rs6913721	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6913932	0.86[ASN][1000 genomes]
rs6914193	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6916994	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6917432	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6917455	0.89[EUR][1000 genomes]
rs6917931	0.88[EUR][1000 genomes]
rs6921007	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921504	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6921619	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6925648	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6926831	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6927748	0.85[ASN][1000 genomes]
rs6929920	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6932678	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6933046	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6934603	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6934717	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6937874	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6940544	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7453986	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739034	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7739726	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7742478	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7742710	0.83[ASN][1000 genomes]
rs7748191	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7748879	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7751029	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7752485	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7752882	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7753030	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755244	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7755883	0.86[ASN][1000 genomes]
rs7757199	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7757827	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7758618	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7760278	0.88[EUR][1000 genomes]
rs7761970	0.88[EUR][1000 genomes]
rs7762640	0.88[EUR][1000 genomes]
rs7763365	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7763371	0.88[EUR][1000 genomes]
rs7766324	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7767449	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7768575	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7774603	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7774771	0.88[EUR][1000 genomes]
rs7774872	0.88[EUR][1000 genomes]
rs7776407	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs910563	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9294367	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9294368	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9294370	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9294371	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9294372	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9294373	0.86[EUR][1000 genomes]
rs9344676	0.88[EUR][1000 genomes]
rs9344677	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9344690	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9344691	0.85[ASN][1000 genomes]
rs9344693	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9344695	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9344696	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9344697	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9351117	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9351124	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9353450	0.88[EUR][1000 genomes]
rs9353452	0.89[EUR][1000 genomes]
rs9353453	0.89[EUR][1000 genomes]
rs9353456	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9353462	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9353463	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9353464	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9353465	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9353466	0.90[ASN][1000 genomes]
rs9353468	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9353473	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9359731	0.86[EUR][1000 genomes]
rs9359735	0.85[EUR][1000 genomes]
rs9359736	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9359740	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9359743	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9362398	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9362400	0.87[EUR][1000 genomes]
rs9362401	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9362408	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9362411	0.85[ASN][1000 genomes]
rs9362413	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9362415	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9362417	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9444479	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9450620	0.88[EUR][1000 genomes]
rs9450634	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9450641	0.82[AMR][1000 genomes]
rs9450647	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9450650	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9450652	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs959038	0.84[EUR][1000 genomes]
rs994170	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs6454600	C6orf164	cis	Skin Sun Exposed Lower leg	GTEx
rs6454600	C6orf163	Cis_1M	lymphoblastoid	RTeQTL
rs6454600	C6orf162	Cis_1M	lymphoblastoid	RTeQTL
rs6454600	C6orf164	cis	Whole Blood	GTEx
rs6454600	C6orf164	cis	Thyroid	GTEx
rs6454600	SLC35A1	cis	multi-tissue	Pritchard
rs6454600	SLC35A1	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:88000600-88004600	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr6:88003800-88004600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr6:88004200-88006800	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links