Variant report

Variant	rs2325885
Chromosome Location	chr17:46290375-46290376
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:46280780..46283724-chr17:46288519..46290761,2	K562	blood:
2	chr17:46288806..46291737-chr17:46295119..46298079,2	MCF-7	breast:
3	chr17:46280535..46282800-chr17:46290089..46292588,2	K562	blood:
4	chr17:46285290..46288098-chr17:46289757..46292675,2	K562	blood:
5	chr17:46289301..46291903-chr17:46294657..46296456,2	K562	blood:

Extended variants
information (count: 120 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:120)

rs_ID	r²[population]
rs1002330	0.80[ASN][1000 genomes]
rs1010228	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1010230	0.89[ASN][1000 genomes]
rs10445377	0.80[ASN][1000 genomes]
rs10853097	0.81[ASN][1000 genomes]
rs10853098	0.80[ASN][1000 genomes]
rs11079808	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11079809	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11079814	0.82[ASN][1000 genomes]
rs11872095	0.82[ASN][1000 genomes]
rs12150533	0.84[ASN][1000 genomes]
rs12452956	0.82[ASN][1000 genomes]
rs12600980	0.81[ASN][1000 genomes]
rs12936369	0.98[ASN][1000 genomes]
rs12939334	0.91[ASN][1000 genomes]
rs12941295	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12941830	0.80[ASN][1000 genomes]
rs12943543	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12946208	0.91[ASN][1000 genomes]
rs12947089	0.80[ASN][1000 genomes]
rs12950213	0.81[AMR][1000 genomes]
rs12950402	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1316657	0.80[ASN][1000 genomes]
rs1452662	1.00[ASN][1000 genomes]
rs1452663	1.00[ASN][1000 genomes]
rs1452665	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16953927	1.00[ASN][1000 genomes]
rs16953941	1.00[ASN][1000 genomes]
rs16954268	0.90[ASN][1000 genomes]
rs16954324	0.89[ASN][1000 genomes]
rs17620033	0.82[ASN][1000 genomes]
rs17681336	0.80[ASN][1000 genomes]
rs1860866	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1979897	0.89[ASN][1000 genomes]
rs2021752	0.80[ASN][1000 genomes]
rs208005	0.95[ASN][1000 genomes]
rs208008	0.93[ASN][1000 genomes]
rs208009	0.93[ASN][1000 genomes]
rs208011	0.98[ASN][1000 genomes]
rs208012	0.98[ASN][1000 genomes]
rs208015	0.90[ASN][1000 genomes]
rs208019	0.95[ASN][1000 genomes]
rs2109983	0.89[ASN][1000 genomes]
rs2109984	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2123341	0.82[ASN][1000 genomes]
rs2278868	0.82[ASN][1000 genomes]
rs2305433	0.82[ASN][1000 genomes]
rs2325784	0.92[ASN][1000 genomes]
rs2325804	0.93[ASN][1000 genomes]
rs34949267	0.80[ASN][1000 genomes]
rs34980108	1.00[ASN][1000 genomes]
rs35361214	0.81[AMR][1000 genomes]
rs35688835	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs36071506	1.00[ASN][1000 genomes]
rs3744346	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3744347	0.83[EUR][1000 genomes]
rs3792692	0.80[ASN][1000 genomes]
rs3792694	0.82[ASN][1000 genomes]
rs3805370	0.82[ASN][1000 genomes]
rs3805371	0.82[ASN][1000 genomes]
rs3815472	0.93[ASN][1000 genomes]
rs3897789	0.91[ASN][1000 genomes]
rs3897986	0.82[ASN][1000 genomes]
rs4794441	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4794448	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4794449	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4794451	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4794453	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4794505	0.84[ASN][1000 genomes]
rs4794517	0.84[ASN][1000 genomes]
rs4794525	0.82[ASN][1000 genomes]
rs55696440	0.98[ASN][1000 genomes]
rs55982346	0.84[ASN][1000 genomes]
rs62064953	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62066447	0.84[ASN][1000 genomes]
rs6504024	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6504025	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6504031	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6504032	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6504108	0.84[ASN][1000 genomes]
rs67345313	0.91[ASN][1000 genomes]
rs71356520	0.87[ASN][1000 genomes]
rs71356521	0.91[ASN][1000 genomes]
rs7209585	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7209730	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7210149	0.84[ASN][1000 genomes]
rs7213339	0.83[AMR][1000 genomes]
rs7213876	0.82[ASN][1000 genomes]
rs7218700	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7219967	0.84[ASN][1000 genomes]
rs7220520	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7220922	0.80[ASN][1000 genomes]
rs7221441	0.84[AMR][1000 genomes]
rs7222136	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7223867	0.80[ASN][1000 genomes]
rs7224461	0.89[ASN][1000 genomes]
rs7225550	0.80[ASN][1000 genomes]
rs741058	0.89[ASN][1000 genomes]
rs8065670	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8065993	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8066391	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8069064	0.84[ASN][1000 genomes]
rs8069263	0.84[ASN][1000 genomes]
rs8069889	0.82[AMR][1000 genomes]
rs8071199	0.84[ASN][1000 genomes]
rs8072282	0.84[ASN][1000 genomes]
rs8075270	0.82[ASN][1000 genomes]
rs8075500	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8076380	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8077860	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8079616	0.93[ASN][1000 genomes]
rs8080662	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs882380	0.84[ASN][1000 genomes]
rs978263	0.81[ASN][1000 genomes]
rs9807087	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9889470	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9890691	0.81[ASN][1000 genomes]
rs9903692	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9909933	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9910516	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2325885	PNPO	Cis_1M	lymphoblastoid	RTeQTL
rs2325885	SNX11	cis	Whole Blood	GTEx
rs2325885	SNX11	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46266800-46298600	Weak transcription	Thymus	Thymus
2	chr17:46266800-46318200	Weak transcription	Primary B cells from peripheral blood	blood
3	chr17:46273200-46293000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr17:46273200-46302800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr17:46273200-46314000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr17:46274200-46297200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr17:46280000-46295800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr17:46283600-46292800	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr17:46283600-46314000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr17:46286800-46297400	Strong transcription	Primary T cells fromperipheralblood	blood
11	chr17:46287000-46291600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr17:46287400-46291200	Strong transcription	Primary T cells from cord blood	blood
13	chr17:46287800-46293200	Weak transcription	GM12878-XiMat	blood
14	chr17:46288200-46292600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr17:46288400-46307000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr17:46289600-46292800	Weak transcription	K562	blood
17	chr17:46289600-46294600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr17:46290000-46292000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr17:46290200-46291400	Enhancers	Pancreas	Pancrea
20	chr17:46290200-46293000	Weak transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links