Variant report

Variant	rs1452665
Chromosome Location	chr17:46297151-46297152
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:46296978..46298715-chr17:46299496..46302023,2	K562	blood:
2	chr17:46297106..46299092-chr17:46317071..46320031,2	K562	blood:
3	chr17:46297134..46298953-chr17:46333479..46335931,2	K562	blood:
4	chr17:46288806..46291737-chr17:46295119..46298079,2	MCF-7	breast:
5	chr17:46296129..46298208-chr17:46360954..46363694,2	K562	blood:
6	chr17:46297106..46299092-chr17:46317071..46320404,3	K562	blood:
7	chr17:46297000..46299844-chr17:46338124..46340489,2	K562	blood:
8	chr17:46287226..46289688-chr17:46295233..46297657,2	K562	blood:

No data

Extended variants
information (count: 146 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:146)

rs_ID	r²[population]
rs1002330	0.80[ASN][1000 genomes]
rs1010228	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.89[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]
rs11079806	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs11079808	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.96[YRI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11079809	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11079814	0.82[ASN][1000 genomes]
rs11651097	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
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]
rs12936731	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs12939334	0.91[ASN][1000 genomes]
rs12941295	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12941830	0.80[ASN][1000 genomes]
rs12943543	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12946208	0.91[ASN][1000 genomes]
rs12947089	0.85[CHB][hapmap];0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs12950402	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1316657	0.85[CHB][hapmap];0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs1452662	1.00[ASN][1000 genomes]
rs1452663	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1452666	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs1452667	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs1468270	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap]
rs16951519	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs16953927	1.00[ASN][1000 genomes]
rs16953941	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16954268	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs16954324	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs17620033	0.85[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs17681336	0.80[ASN][1000 genomes]
rs1860862	0.85[CHB][hapmap];0.80[JPT][hapmap]
rs1860866	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1979897	1.00[CHB][hapmap];0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs2021752	0.85[CHB][hapmap];0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs2041572	0.86[CHB][hapmap];0.80[JPT][hapmap]
rs2051821	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs2060876	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs208005	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs208008	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs208009	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs208011	0.98[ASN][1000 genomes]
rs208012	0.98[ASN][1000 genomes]
rs208015	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs208019	0.95[ASN][1000 genomes]
rs2109982	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs2109983	0.92[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs2109984	0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2123341	0.85[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs2229369	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs2240120	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2240121	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs2240122	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs2278868	0.85[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs2305433	0.85[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs2325784	0.92[ASN][1000 genomes]
rs2325804	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2325885	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34949267	0.80[ASN][1000 genomes]
rs34980108	1.00[ASN][1000 genomes]
rs35688835	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs36071506	1.00[ASN][1000 genomes]
rs3744346	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3744347	0.83[EUR][1000 genomes]
rs3792692	0.85[CHB][hapmap];0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs3792694	0.85[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs3805370	0.85[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs3805371	0.82[ASN][1000 genomes]
rs3815472	0.93[ASN][1000 genomes]
rs3897789	0.91[ASN][1000 genomes]
rs3897986	0.85[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs4793779	0.84[CHB][hapmap]
rs4794441	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4794447	0.84[CHB][hapmap]
rs4794448	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4794449	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4794451	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4794453	0.84[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	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6504025	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.97[YRI][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6504031	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6504032	0.82[EUR][1000 genomes]
rs6504108	0.85[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs67345313	0.91[ASN][1000 genomes]
rs6847	1.00[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs71356520	0.87[ASN][1000 genomes]
rs71356521	0.91[ASN][1000 genomes]
rs7209585	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7209730	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7210149	0.84[ASN][1000 genomes]
rs7212202	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs7213339	0.81[AMR][1000 genomes]
rs7213876	0.82[ASN][1000 genomes]
rs7217496	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs7218700	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7219967	0.84[ASN][1000 genomes]
rs7220520	1.00[CEU][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7220768	0.85[CHB][hapmap];0.87[JPT][hapmap]
rs7220922	0.80[ASN][1000 genomes]
rs7221441	0.82[AMR][1000 genomes]
rs7222136	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7223867	0.86[CHB][hapmap];0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs7224014	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs7224461	1.00[CHB][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs7225550	0.86[CHB][hapmap];0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs741058	0.89[ASN][1000 genomes]
rs758999	0.86[CHB][hapmap];0.80[JPT][hapmap]
rs8065670	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8065993	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8066391	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8069064	0.84[ASN][1000 genomes]
rs8069263	0.86[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs8069889	0.81[AMR][1000 genomes]
rs8071199	1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs8071879	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8072282	0.85[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs8075270	0.82[ASN][1000 genomes]
rs8075500	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8076380	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8077860	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8079616	0.93[ASN][1000 genomes]
rs8080662	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs875065	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs882380	0.84[ASN][1000 genomes]
rs978263	1.00[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs9807087	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9889470	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9890691	0.81[ASN][1000 genomes]
rs9899275	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs9899461	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs9903692	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9909933	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9910516	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs1452665	SNX11	cis	Skin Sun Exposed Lower leg	GTEx
rs1452665	PNPO	Cis_1M	lymphoblastoid	RTeQTL
rs1452665	SNX11	cis	multi-tissue	Pritchard
rs1452665	SNX11	cis	Whole Blood	GTEx
rs1452665	SNX11	cis	Lymphoblastoid	GTEx

Chromatin state (count:32 , 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	chr17:46273200-46302800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr17:46273200-46314000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr17:46274200-46297200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr17:46283600-46314000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr17:46286800-46297400	Strong transcription	Primary T cells fromperipheralblood	blood
8	chr17:46288400-46307000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr17:46292800-46298600	Strong transcription	Primary T cells from cord blood	blood
10	chr17:46293000-46297200	Strong transcription	Primary T helper cells fromperipheralblood	blood
11	chr17:46293200-46297600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr17:46293800-46301000	Weak transcription	HUVEC	blood vessel
13	chr17:46294000-46318000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr17:46295000-46301600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr17:46295000-46304400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr17:46295200-46303000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr17:46295400-46297400	Enhancers	A549	lung
18	chr17:46295400-46297600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr17:46295800-46297200	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr17:46295800-46303200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr17:46295800-46314200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr17:46296000-46300600	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr17:46296400-46297800	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr17:46296600-46297600	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
25	chr17:46296600-46297800	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
26	chr17:46296800-46297400	Enhancers	GM12878-XiMat	blood
27	chr17:46296800-46297600	Enhancers	HUES64 Cell Line	embryonic stem cell
28	chr17:46296800-46297600	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr17:46296800-46297600	Flanking Active TSS	K562	blood
30	chr17:46296800-46297800	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr17:46297000-46297200	Bivalent Enhancer	Brain Cingulate Gyrus	brain
32	chr17:46297000-46297800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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