Variant report

Variant	rs11065144
Chromosome Location	chr12:120940881-120940882
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:120933669..120935980-chr12:120940007..120941866,3	MCF-7	breast:
2	chr12:120932725..120938580-chr12:120938743..120942478,11	MCF-7	breast:
3	chr12:120903724..120908002-chr12:120939821..120944385,4	MCF-7	breast:
4	chr12:120936621..120939116-chr12:120939943..120941715,2	MCF-7	breast:
5	chr12:120933177..120935963-chr12:120940341..120945552,6	K562	blood:

Variant related genes	Relation type
ENSG00000248008	Chromatin interaction
ENSG00000111786	Chromatin interaction
ENSG00000088986	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs1037611	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10774550	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10774557	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10774558	0.90[EUR][1000 genomes]
rs10774559	0.88[EUR][1000 genomes]
rs10849756	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10849760	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10849762	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10849764	0.87[EUR][1000 genomes]
rs11065147	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11065157	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11065158	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11065163	0.90[EUR][1000 genomes]
rs11065164	0.88[EUR][1000 genomes]
rs1151845	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1151846	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1167688	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1167696	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1167699	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1167701	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1167702	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1167704	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1167705	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1167706	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1167713	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1167714	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1167715	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1167716	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1167719	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1167720	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1167721	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1167722	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1167723	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1167724	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1179460	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1179462	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1179463	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1179464	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1179465	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12227470	0.88[EUR][1000 genomes]
rs12369178	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12370706	0.89[EUR][1000 genomes]
rs1592361	0.88[EUR][1000 genomes]
rs1671762	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1671765	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1671766	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1671769	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1710130	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1710132	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1710142	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1710143	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1710144	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1710146	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1794751	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1794752	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2235223	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2292680	0.89[EUR][1000 genomes]
rs2301456	0.89[EUR][1000 genomes]
rs2673624	0.88[EUR][1000 genomes]
rs2673625	0.88[EUR][1000 genomes]
rs28390349	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3088345	0.89[EUR][1000 genomes]
rs35801170	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3847971	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4767898	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs496370	0.80[EUR][1000 genomes]
rs526176	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs606443	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs634688	0.82[EUR][1000 genomes]
rs667913	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs671566	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs680795	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7135855	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7307666	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs787818	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs787821	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs787822	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs787823	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs787826	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs787828	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs787830	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs787831	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs787833	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs787834	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7963890	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7972060	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs812560	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs8903	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9669663	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11065144	RNF10	Cis_1M	lymphoblastoid	RTeQTL
rs11065144	POP5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:120935200-120941200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr12:120935200-120951400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr12:120935200-120966200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr12:120935400-120945800	Weak transcription	Pancreas	Pancrea
5	chr12:120935600-120941200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr12:120935600-120966200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr12:120935800-120941200	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr12:120935800-120941200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr12:120935800-120941200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr12:120935800-120941400	Weak transcription	Gastric	stomach
11	chr12:120935800-120947000	Weak transcription	Aorta	Aorta
12	chr12:120935800-120951800	Weak transcription	Esophagus	oesophagus
13	chr12:120935800-120953400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr12:120936000-120941400	Weak transcription	Spleen	Spleen
15	chr12:120936000-120943200	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr12:120936000-120943400	Strong transcription	Placenta	Placenta
17	chr12:120936000-120944200	Strong transcription	Left Ventricle	heart
18	chr12:120936000-120944800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr12:120936000-120947000	Weak transcription	Colonic Mucosa	Colon
20	chr12:120936000-120947200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr12:120936000-120955200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr12:120936000-120964200	Strong transcription	Fetal Muscle Trunk	muscle
23	chr12:120936200-120941600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr12:120936400-120941200	Weak transcription	GM12878-XiMat	blood
25	chr12:120936400-120942000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr12:120936400-120963800	Weak transcription	Hela-S3	cervix
27	chr12:120936400-120966000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr12:120936400-120966200	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr12:120936600-120941800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr12:120936600-120949600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
31	chr12:120936600-120954800	Strong transcription	Adipose Nuclei	Adipose
32	chr12:120936800-120941000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr12:120936800-120941000	Weak transcription	Fetal Kidney	kidney
34	chr12:120936800-120941400	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr12:120936800-120941400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr12:120936800-120941400	Weak transcription	HepG2	liver
37	chr12:120936800-120944600	Strong transcription	Fetal Muscle Leg	muscle
38	chr12:120936800-120956600	Weak transcription	Stomach Mucosa	stomach
39	chr12:120937000-120941000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr12:120937000-120941000	Weak transcription	Dnd41	blood
41	chr12:120937000-120941200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr12:120937000-120941200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr12:120937000-120944400	Strong transcription	Fetal Stomach	stomach
44	chr12:120937000-120951800	Weak transcription	NH-A	brain
45	chr12:120937200-120941000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr12:120937200-120941000	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr12:120937200-120941000	Weak transcription	Placenta Amnion	Placenta Amnion
48	chr12:120937200-120941000	Weak transcription	HMEC	breast
49	chr12:120937200-120941000	Weak transcription	HSMM	muscle
50	chr12:120937200-120941000	Weak transcription	HUVEC	blood vessel

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