Variant report

Variant	rs2487875
Chromosome Location	chr9:100046681-100046682
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:100031832..100033632-chr9:100044301..100046753,2	MCF-7	breast:

Extended variants
information (count: 124 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:124)

rs_ID	r²[population]
rs10115798	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10116404	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10217229	0.81[EUR][1000 genomes]
rs10217329	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10435866	0.87[EUR][1000 genomes]
rs10733584	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10733603	0.90[EUR][1000 genomes]
rs10739337	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10739365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759542	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10759547	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10759605	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759610	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759619	0.91[EUR][1000 genomes]
rs10759643	0.84[EUR][1000 genomes]
rs10817300	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10817306	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10817361	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10817403	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10817448	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10817492	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10817513	0.84[AMR][1000 genomes]
rs10817515	0.87[AMR][1000 genomes]
rs10981362	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10981528	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981537	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981551	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981557	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981560	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981625	0.93[EUR][1000 genomes]
rs10981676	0.81[EUR][1000 genomes]
rs10981848	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10981851	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10981889	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10981916	0.87[AMR][1000 genomes]
rs12378801	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12683119	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12683933	0.98[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1462086	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1462087	0.88[EUR][1000 genomes]
rs1462092	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1531439	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17331748	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1870859	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1935372	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2061634	0.88[EUR][1000 genomes]
rs2061635	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2255135	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2255139	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2255244	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2401382	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2447287	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2447288	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2447289	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2447290	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2487874	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2502646	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2615144	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2795363	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2795366	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2795369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2795370	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2818236	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2818237	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2818240	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2818241	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2818242	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2818244	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2859564	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2888960	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3953688	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3994559	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3994561	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3994562	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4345679	0.93[EUR][1000 genomes]
rs4433262	0.89[EUR][1000 genomes]
rs4437755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4524907	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4615708	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4645658	0.88[EUR][1000 genomes]
rs4742683	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4742684	0.88[EUR][1000 genomes]
rs4743067	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4743074	0.93[EUR][1000 genomes]
rs4743075	0.92[EUR][1000 genomes]
rs4743080	0.84[EUR][1000 genomes]
rs56077563	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56306467	0.85[AMR][1000 genomes]
rs6478043	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6478044	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6478048	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6478051	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6478054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6478055	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6478059	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7020002	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7020144	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7023087	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7026287	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7026893	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7029749	0.87[EUR][1000 genomes]
rs7033212	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7033480	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7033642	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7038353	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7047367	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71491754	0.82[EUR][1000 genomes]
rs725228	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs725229	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs752243	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7847332	0.90[EUR][1000 genomes]
rs7850473	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7855385	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7855956	0.91[EUR][1000 genomes]
rs7860264	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7867330	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7868052	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7868295	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7868312	0.85[EUR][1000 genomes]
rs7875158	0.85[EUR][1000 genomes]
rs7875296	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9299202	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9408859	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9409139	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2487875	RP11-520B13.4	cis	Esophagus Muscularis	GTEx
rs2487875	CCDC180	cis	Artery Tibial	GTEx
rs2487875	RP11-23J9.4	cis	Artery Tibial	GTEx

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100025800-100050200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:100035000-100059600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:100036800-100052200	Weak transcription	Stomach Mucosa	stomach
4	chr9:100037200-100050200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr9:100037400-100047000	Strong transcription	Fetal Muscle Trunk	muscle
6	chr9:100038200-100050600	Weak transcription	Esophagus	oesophagus
7	chr9:100038600-100046800	Strong transcription	Brain Anterior Caudate	brain
8	chr9:100038600-100047600	Weak transcription	HepG2	liver
9	chr9:100038800-100047200	Strong transcription	Liver	Liver
10	chr9:100038800-100050400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:100039000-100047000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr9:100039000-100047000	Strong transcription	Skeletal Muscle Male	skeletal muscle
13	chr9:100039000-100050600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr9:100039000-100052800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:100039000-100053000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr9:100039000-100054200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr9:100039200-100052800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr9:100039200-100056400	Weak transcription	Small Intestine	intestine
19	chr9:100039400-100046800	Strong transcription	Primary T cells from cord blood	blood
20	chr9:100039600-100047200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr9:100039600-100047400	Strong transcription	Adipose Nuclei	Adipose
22	chr9:100039600-100055000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr9:100039600-100055600	Weak transcription	NH-A	brain
24	chr9:100039800-100046800	Strong transcription	Dnd41	blood
25	chr9:100039800-100047200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr9:100039800-100047200	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr9:100039800-100048000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr9:100039800-100050400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr9:100039800-100051800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr9:100039800-100055600	Weak transcription	NHLF	lung
31	chr9:100040200-100046800	Strong transcription	H1 Cell Line	embryonic stem cell
32	chr9:100040200-100046800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr9:100040600-100047000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr9:100040800-100055600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr9:100041000-100050400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr9:100041200-100050600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr9:100041400-100047200	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr9:100041400-100059600	Weak transcription	Fetal Brain Male	brain
39	chr9:100041600-100050000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr9:100041600-100052800	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr9:100041800-100047600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr9:100041800-100049200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr9:100042200-100048200	Strong transcription	Primary T helper cells PMA-I stimulated	--
44	chr9:100042600-100049000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr9:100043200-100050200	Weak transcription	Right Ventricle	heart
46	chr9:100043400-100050600	Weak transcription	Thymus	Thymus
47	chr9:100043600-100050000	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr9:100043800-100049600	Weak transcription	Fetal Brain Female	brain
49	chr9:100043800-100050000	Weak transcription	Duodenum Mucosa	Duodenum
50	chr9:100043800-100052800	Weak transcription	Hela-S3	cervix

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