Variant report

Variant	rs34562714
Chromosome Location	chr15:49475282-49475283
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	chr15:49446271..49448086-chr15:49474263..49476987,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166200	Chromatin interaction
ENSG00000156958	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10519224	1.00[AFR][1000 genomes]
rs10519225	1.00[AFR][1000 genomes]
rs11853969	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11854039	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854557	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11857515	0.88[AFR][1000 genomes]
rs11857773	0.83[ASN][1000 genomes]
rs11858814	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12591300	0.96[AFR][1000 genomes]
rs12899422	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12900838	0.81[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs12901353	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12901929	1.00[AFR][1000 genomes]
rs12902096	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12902271	0.86[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12905094	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12905477	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs12914876	0.88[AFR][1000 genomes]
rs17393761	0.81[ASN][1000 genomes]
rs17435932	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17472989	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1961393	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2289389	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34748066	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36023246	1.00[AFR][1000 genomes]
rs36100631	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4774538	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4775806	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4775808	0.96[AFR][1000 genomes]
rs55979115	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62009762	0.85[ASN][1000 genomes]
rs62009834	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71467664	0.81[ASN][1000 genomes]
rs7180168	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7497335	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8029687	0.82[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs8043493	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9672848	0.81[AFR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs34562714	COPS2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49463000-49479600	Weak transcription	Left Ventricle	heart
2	chr15:49463200-49479600	Weak transcription	Right Ventricle	heart
3	chr15:49463200-49479800	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr15:49463200-49508200	Weak transcription	Ovary	ovary
5	chr15:49463400-49480000	Weak transcription	Stomach Smooth Muscle	stomach
6	chr15:49463600-49477200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr15:49463600-49479400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr15:49463600-49479600	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr15:49463600-49494400	Weak transcription	Fetal Thymus	thymus
10	chr15:49463600-49517600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr15:49463600-49527800	Weak transcription	HSMM	muscle
12	chr15:49463600-49540200	Weak transcription	Colonic Mucosa	Colon
13	chr15:49463800-49479200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr15:49463800-49479400	Weak transcription	Osteobl	bone
15	chr15:49464000-49482800	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr15:49464000-49491600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr15:49464200-49477400	Weak transcription	Fetal Intestine Large	intestine
18	chr15:49464200-49479200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr15:49464200-49479400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr15:49464200-49481800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr15:49464400-49493800	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr15:49464400-49493800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr15:49464400-49500000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr15:49464800-49477400	Weak transcription	Primary T cells from cord blood	blood
25	chr15:49464800-49479600	Weak transcription	NHLF	lung
26	chr15:49464800-49481800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr15:49465200-49494000	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr15:49465400-49477400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr15:49465400-49479600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr15:49465400-49508200	Weak transcription	Hela-S3	cervix
31	chr15:49466800-49482800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr15:49467600-49479400	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr15:49467600-49494200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr15:49467800-49479600	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr15:49468000-49479400	Weak transcription	Stomach Mucosa	stomach
36	chr15:49468400-49494400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr15:49468600-49476000	Weak transcription	A549	lung
38	chr15:49468600-49479600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr15:49470000-49476600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr15:49470200-49480000	Weak transcription	Fetal Intestine Small	intestine
41	chr15:49471000-49475400	Weak transcription	Gastric	stomach
42	chr15:49471000-49476400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr15:49472800-49497200	Weak transcription	Brain Anterior Caudate	brain
44	chr15:49473000-49481600	Weak transcription	K562	blood
45	chr15:49473000-49483400	Weak transcription	Brain Hippocampus Middle	brain
46	chr15:49473600-49479800	Weak transcription	Lung	lung
47	chr15:49473600-49483200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr15:49474400-49477000	Weak transcription	Fetal Lung	lung
49	chr15:49474800-49490200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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