Variant report

Variant	rs1001476
Chromosome Location	chr7:38829465-38829466
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10254617	0.83[AFR][1000 genomes]
rs10486680	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes]
rs10951573	0.90[CEU][hapmap]
rs11970960	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11971030	1.00[EUR][1000 genomes]
rs11977016	0.96[EUR][1000 genomes]
rs11978816	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11980534	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11982889	1.00[CEU][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11984145	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs12112141	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13231320	0.90[CEU][hapmap]
rs1468347	0.81[LWK][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes]
rs1557941	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16879964	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16879966	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17171465	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17171466	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28680843	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34753378	1.00[EUR][1000 genomes]
rs4723789	0.93[YRI][hapmap]
rs60354841	0.96[EUR][1000 genomes]
rs68175808	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6962120	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs6976100	1.00[CEU][hapmap];0.82[YRI][hapmap];1.00[EUR][1000 genomes]
rs713243	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes]
rs73113674	1.00[EUR][1000 genomes]
rs73113680	1.00[EUR][1000 genomes]
rs73113689	1.00[EUR][1000 genomes]
rs73113699	1.00[EUR][1000 genomes]
rs73115614	1.00[EUR][1000 genomes]
rs73115622	1.00[EUR][1000 genomes]
rs73115623	1.00[EUR][1000 genomes]
rs73115628	1.00[EUR][1000 genomes]
rs73121378	1.00[EUR][1000 genomes]
rs73121380	1.00[EUR][1000 genomes]
rs73121381	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73121384	1.00[EUR][1000 genomes]
rs73121386	1.00[EUR][1000 genomes]
rs73121396	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73121399	0.96[EUR][1000 genomes]
rs73123603	0.96[EUR][1000 genomes]
rs73123614	0.96[EUR][1000 genomes]
rs73123618	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73123621	0.96[EUR][1000 genomes]
rs73123624	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73123626	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73123893	0.96[EUR][1000 genomes]
rs73125633	0.96[EUR][1000 genomes]
rs7812184	1.00[CEU][hapmap];1.00[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1001476	VPS41	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38757200-38835400	Weak transcription	Psoas Muscle	Psoas
2	chr7:38784800-38835000	Weak transcription	NHEK	skin
3	chr7:38785600-38834600	Weak transcription	HMEC	breast
4	chr7:38785600-38835000	Weak transcription	NH-A	brain
5	chr7:38793400-38861200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr7:38793600-38832600	Weak transcription	Brain Angular Gyrus	brain
7	chr7:38800200-38837600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr7:38803200-38845400	Weak transcription	Colonic Mucosa	Colon
9	chr7:38803200-38846000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr7:38804400-38836200	Weak transcription	Fetal Brain Male	brain
11	chr7:38806800-38832800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr7:38812600-38831400	Weak transcription	A549	lung
13	chr7:38812800-38834800	Weak transcription	HSMMtube	muscle
14	chr7:38813800-38830600	Weak transcription	Rectal Smooth Muscle	rectum
15	chr7:38813800-38834200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr7:38813800-38836400	Weak transcription	HUVEC	blood vessel
17	chr7:38813800-38839600	Weak transcription	Right Ventricle	heart
18	chr7:38813800-38857400	Weak transcription	HSMM	muscle
19	chr7:38818400-38833000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr7:38820000-38836600	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr7:38822200-38837400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr7:38822400-38836400	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr7:38822400-38855200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr7:38823600-38835400	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr7:38824800-38836400	Strong transcription	Primary B cells from cord blood	blood
26	chr7:38825000-38837800	Weak transcription	Fetal Heart	heart
27	chr7:38825200-38836400	Strong transcription	Primary B cells from peripheral blood	blood
28	chr7:38825400-38832000	Strong transcription	Liver	Liver
29	chr7:38825600-38834600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr7:38825600-38835800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr7:38825600-38835800	Strong transcription	GM12878-XiMat	blood
32	chr7:38825800-38835600	Strong transcription	Adipose Nuclei	Adipose
33	chr7:38825800-38836000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr7:38826200-38836400	Strong transcription	Primary T helper cells fromperipheralblood	blood
35	chr7:38826400-38834400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr7:38826600-38829800	Strong transcription	Primary T cells from cord blood	blood
37	chr7:38826800-38832000	Strong transcription	Duodenum Mucosa	Duodenum
38	chr7:38826800-38833000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr7:38827000-38836200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr7:38827200-38836400	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr7:38827400-38829600	Strong transcription	Dnd41	blood
42	chr7:38827400-38829800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr7:38827400-38831000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr7:38827400-38831400	Strong transcription	Primary T helper cells PMA-I stimulated	--
45	chr7:38827400-38831800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr7:38827400-38834400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr7:38827400-38834400	Strong transcription	Fetal Intestine Large	intestine
48	chr7:38827400-38836400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
49	chr7:38827600-38829600	Strong transcription	Sigmoid Colon	Sigmoid Colon
50	chr7:38827600-38829800	Strong transcription	NHDF-Ad	bronchial

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