Variant report

Variant	rs34252990
Chromosome Location	chr3:47661739-47661740
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:47656844..47659037-chr3:47659950..47662348,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1014228	0.91[EUR][1000 genomes]
rs10865948	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11130138	0.80[EUR][1000 genomes]
rs11130139	0.85[EUR][1000 genomes]
rs11130143	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11130144	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11130145	0.83[EUR][1000 genomes]
rs11130146	0.81[EUR][1000 genomes]
rs11712152	0.84[EUR][1000 genomes]
rs11716582	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11929303	0.91[EUR][1000 genomes]
rs12492915	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12497921	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12498027	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12636198	0.86[EUR][1000 genomes]
rs12636863	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13061412	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13069142	0.86[EUR][1000 genomes]
rs13081356	0.83[EUR][1000 genomes]
rs13085978	0.92[EUR][1000 genomes]
rs1403578	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1403579	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1464614	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2140335	0.81[EUR][1000 genomes]
rs2280567	0.86[EUR][1000 genomes]
rs2293226	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2882611	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34616865	0.89[EUR][1000 genomes]
rs3732530	0.86[EUR][1000 genomes]
rs3755637	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3755638	0.89[EUR][1000 genomes]
rs3772403	0.87[EUR][1000 genomes]
rs4274776	0.92[EUR][1000 genomes]
rs4858801	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4858842	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4858846	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56746603	0.92[EUR][1000 genomes]
rs60110914	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs60322343	0.86[EUR][1000 genomes]
rs61620099	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61675361	0.93[EUR][1000 genomes]
rs6442072	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6774170	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7613934	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7621236	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7624474	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7631950	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs868255	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs869508	0.88[EUR][1000 genomes]
rs870622	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs883661	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs883662	0.93[EUR][1000 genomes]
rs883663	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs34252990	MAP4	Cis_1M	lymphoblastoid	RTeQTL
rs34252990	DHX30	Cis_1M	lymphoblastoid	RTeQTL
rs34252990	MRPS18AP1	cis	Nerve Tibial	GTEx
rs34252990	MRPS18AP1	cis	lung	GTEx
rs34252990	MRPS18AP1	cis	Muscle Skeletal	GTEx
rs34252990	NME6	cis	Esophagus Muscularis	GTEx
rs34252990	ZNF589	cis	Nerve Tibial	GTEx
rs34252990	MRPS18AP1	cis	Artery Tibial	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:47626200-47698600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr3:47626400-47680600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr3:47626600-47688600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
4	chr3:47626600-47699800	Strong transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:47626800-47680800	Strong transcription	Primary T cells fromperipheralblood	blood
6	chr3:47635000-47686800	Strong transcription	Dnd41	blood
7	chr3:47636800-47672800	Weak transcription	Small Intestine	intestine
8	chr3:47637200-47665000	Strong transcription	Primary T cells from cord blood	blood
9	chr3:47638000-47681200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr3:47638200-47665800	Strong transcription	H1 Cell Line	embryonic stem cell
11	chr3:47639200-47675800	Strong transcription	Monocytes-CD14+_RO01746	blood
12	chr3:47643600-47684800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr3:47643800-47666400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
14	chr3:47644200-47676000	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr3:47644400-47664600	Strong transcription	Duodenum Mucosa	Duodenum
16	chr3:47644600-47663800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr3:47645200-47663200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr3:47645400-47663600	Strong transcription	HepG2	liver
19	chr3:47645800-47664600	Strong transcription	Primary hematopoietic stem cells	blood
20	chr3:47646600-47666600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr3:47648000-47670600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr3:47651800-47666800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr3:47653400-47678200	Strong transcription	Fetal Intestine Large	intestine
24	chr3:47653800-47664000	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr3:47654200-47672400	Weak transcription	NHLF	lung
26	chr3:47654400-47707600	Weak transcription	Stomach Mucosa	stomach
27	chr3:47655000-47681000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr3:47655000-47681600	Strong transcription	Primary T helper cells fromperipheralblood	blood
29	chr3:47655400-47666400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr3:47655400-47676600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr3:47655600-47663400	Weak transcription	Psoas Muscle	Psoas
32	chr3:47655600-47663800	Strong transcription	Fetal Lung	lung
33	chr3:47655600-47677000	Strong transcription	Primary B cells from cord blood	blood
34	chr3:47655600-47684600	Strong transcription	Liver	Liver
35	chr3:47655800-47686800	Strong transcription	HUES6 Cell Line	embryonic stem cell
36	chr3:47655800-47698800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr3:47655800-47765600	Strong transcription	HUES48 Cell Line	embryonic stem cell
38	chr3:47656000-47662400	Strong transcription	Placenta Amnion	Placenta Amnion
39	chr3:47656000-47666600	Strong transcription	GM12878-XiMat	blood
40	chr3:47656000-47669000	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr3:47656000-47680600	Strong transcription	Fetal Muscle Leg	muscle
42	chr3:47656200-47681600	Strong transcription	Primary B cells from peripheral blood	blood
43	chr3:47656200-47699800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
44	chr3:47656400-47664000	Strong transcription	Adipose Nuclei	Adipose
45	chr3:47656400-47665000	Strong transcription	HSMM	muscle
46	chr3:47656400-47665600	Strong transcription	Fetal Muscle Trunk	muscle
47	chr3:47656400-47667400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr3:47656400-47679800	Strong transcription	Thymus	Thymus
49	chr3:47656400-47693800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr3:47656400-47698200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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