Variant report

Variant	rs3801143
Chromosome Location	chr7:38795485-38795486
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:38793546..38795976-chr7:38802943..38805348,2	K562	blood:
2	chr7:38794568..38796286-chr7:38802681..38805625,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000006715	Chromatin interaction

Extended variants
information (count: 100 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs1017028	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10242048	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10247503	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10251912	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10254567	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10271176	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10486677	0.95[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs10486678	0.95[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs11971020	0.99[ASN][1000 genomes]
rs11979618	0.88[ASN][1000 genomes]
rs11979824	0.99[ASN][1000 genomes]
rs11980882	0.86[CHB][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap]
rs12533557	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12672237	0.88[ASN][1000 genomes]
rs12672750	0.88[ASN][1000 genomes]
rs12672793	0.86[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs12672885	0.95[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs12674115	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs12701659	0.90[ASN][1000 genomes]
rs1468348	0.91[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs17700072	0.86[ASN][1000 genomes]
rs17700142	0.86[CHB][hapmap];0.90[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs17700172	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs17700190	0.88[ASN][1000 genomes]
rs17700262	0.95[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs17700392	0.99[ASN][1000 genomes]
rs17700752	0.86[CHB][hapmap];0.95[CHD][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs17767695	0.86[ASN][1000 genomes]
rs17767770	0.90[ASN][1000 genomes]
rs17767818	0.86[CHB][hapmap];0.90[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs17768153	0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs17768212	0.99[ASN][1000 genomes]
rs17768711	0.89[CHB][hapmap]
rs17768753	0.85[JPT][hapmap]
rs1859494	0.90[ASN][1000 genomes]
rs1859937	0.87[CHB][hapmap];0.90[JPT][hapmap]
rs1978171	0.88[ASN][1000 genomes]
rs1978172	0.88[ASN][1000 genomes]
rs2074655	0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs2074657	0.95[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs2107743	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2108507	0.82[CHB][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap]
rs2189855	0.94[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs2214666	0.99[ASN][1000 genomes]
rs2240351	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2240352	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2240353	0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs2240354	0.97[ASN][1000 genomes]
rs2286082	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2286084	0.99[ASN][1000 genomes]
rs2286086	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2286087	0.99[ASN][1000 genomes]
rs2286088	0.95[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs2286091	0.99[ASN][1000 genomes]
rs2286094	0.98[ASN][1000 genomes]
rs2286098	0.95[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs2286104	0.99[ASN][1000 genomes]
rs2286105	0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs2286106	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.89[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2286109	0.86[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs2392598	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28548028	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34724372	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs35253728	0.90[ASN][1000 genomes]
rs35791079	0.90[ASN][1000 genomes]
rs3735347	0.91[CHB][hapmap];0.93[CHD][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs3801135	0.82[JPT][hapmap]
rs3801139	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3801140	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3801141	0.99[ASN][1000 genomes]
rs3801145	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.84[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3801146	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4430003	0.82[JPT][hapmap]
rs4723782	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4723785	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56002981	0.80[ASN][1000 genomes]
rs56050717	0.86[ASN][1000 genomes]
rs57091471	0.99[ASN][1000 genomes]
rs60590111	0.88[ASN][1000 genomes]
rs62444078	0.97[ASN][1000 genomes]
rs62444107	0.99[ASN][1000 genomes]
rs6462860	0.88[ASN][1000 genomes]
rs66662538	0.88[ASN][1000 genomes]
rs66796288	0.90[ASN][1000 genomes]
rs66976998	0.85[ASN][1000 genomes]
rs67202646	0.88[ASN][1000 genomes]
rs733150	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73368205	0.95[ASN][1000 genomes]
rs7778570	0.88[ASN][1000 genomes]
rs7779329	0.88[ASN][1000 genomes]
rs7780625	0.82[CHB][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap]
rs7783546	0.90[ASN][1000 genomes]
rs7783695	0.81[JPT][hapmap]
rs7785911	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.83[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7786389	0.99[ASN][1000 genomes]
rs7788664	0.80[JPT][hapmap]
rs7794030	0.89[ASN][1000 genomes]
rs7795874	0.94[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.83[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7797871	0.90[ASN][1000 genomes]
rs886646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs3801143	STARD3NL	cis	lymphoblastoid	seeQTL
rs3801143	MAB21L2	trans	cerebellum	SCAN
rs3801143	C7orf10	cis	cerebellum	SCAN
rs3801143	EPDR1	cis	cerebellum	SCAN

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38749000-38803600	Weak transcription	Fetal Brain Male	brain
2	chr7:38757200-38835400	Weak transcription	Psoas Muscle	Psoas
3	chr7:38759200-38810200	Weak transcription	A549	lung
4	chr7:38759400-38810600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr7:38760000-38799800	Weak transcription	HUVEC	blood vessel
6	chr7:38760600-38800200	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr7:38761000-38820400	Weak transcription	Stomach Mucosa	stomach
8	chr7:38763200-38828000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr7:38763400-38828800	Weak transcription	HepG2	liver
10	chr7:38765400-38802800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr7:38767200-38802800	Weak transcription	Right Ventricle	heart
12	chr7:38767200-38805800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr7:38774800-38816800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr7:38775800-38816600	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr7:38777400-38800400	Strong transcription	Primary B cells from cord blood	blood
16	chr7:38780800-38803600	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr7:38780800-38806000	Weak transcription	Fetal Brain Female	brain
18	chr7:38780800-38828800	Weak transcription	Gastric	stomach
19	chr7:38781400-38805800	Weak transcription	Brain Substantia Nigra	brain
20	chr7:38784400-38805800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr7:38784600-38805800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr7:38784800-38835000	Weak transcription	NHEK	skin
23	chr7:38785000-38815800	Weak transcription	NHLF	lung
24	chr7:38785600-38834600	Weak transcription	HMEC	breast
25	chr7:38785600-38835000	Weak transcription	NH-A	brain
26	chr7:38786600-38805800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr7:38786600-38805800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr7:38786600-38806000	Weak transcription	Brain Cingulate Gyrus	brain
29	chr7:38787000-38827400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr7:38787200-38797000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr7:38789000-38797400	Strong transcription	Primary neutrophils fromperipheralblood	blood
32	chr7:38789000-38800000	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr7:38789000-38818800	Strong transcription	Primary B cells from peripheral blood	blood
34	chr7:38789200-38800000	Strong transcription	Fetal Intestine Large	intestine
35	chr7:38789400-38795600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr7:38789400-38795800	Strong transcription	Primary T cells from cord blood	blood
37	chr7:38789400-38799600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr7:38789600-38797800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr7:38789600-38798000	Strong transcription	Primary hematopoietic stem cells	blood
40	chr7:38789600-38799600	Strong transcription	Adipose Nuclei	Adipose
41	chr7:38789600-38800000	Strong transcription	Liver	Liver
42	chr7:38789600-38800200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr7:38789600-38811000	Weak transcription	Pancreatic Islets	Pancreatic Islet
44	chr7:38789600-38816800	Strong transcription	Primary T cells fromperipheralblood	blood
45	chr7:38789800-38795800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
46	chr7:38789800-38795800	Strong transcription	Placenta	Placenta
47	chr7:38789800-38796200	Weak transcription	Fetal Kidney	kidney
48	chr7:38790200-38799200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr7:38790200-38800000	Strong transcription	Primary T helper cells PMA-I stimulated	--
50	chr7:38790800-38799400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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