Variant report

Variant	rs746794
Chromosome Location	chr6:109712737-109712738
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109710996..109712933-chr6:109713290..109714925,2	MCF-7	breast:
2	chr6:109701817..109708859-chr6:109709273..109715844,12	K562	blood:
3	chr6:109711182..109714084-chr6:109716397..109718567,2	K562	blood:
4	chr6:109711604..109714204-chr6:109721732..109723355,2	K562	blood:
5	chr6:109703167..109707934-chr6:109708161..109712915,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135535	Chromatin interaction
ENSG00000260273	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1046943	0.88[EUR][1000 genomes]
rs1074765	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1074766	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10872033	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11251	0.94[EUR][1000 genomes]
rs12214147	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12529733	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13219952	0.94[EUR][1000 genomes]
rs1476387	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1521907	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17070591	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1853330	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1885690	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1885691	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2211288	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2236084	0.88[EUR][1000 genomes]
rs2277113	0.89[EUR][1000 genomes]
rs2884037	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35146243	0.87[EUR][1000 genomes]
rs3734652	0.88[EUR][1000 genomes]
rs3757230	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3757231	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3757235	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3778474	0.94[EUR][1000 genomes]
rs3778478	0.88[EUR][1000 genomes]
rs3818933	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4636056	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4945831	0.81[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs4946967	0.94[EUR][1000 genomes]
rs4946970	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4946976	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs58644322	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59597139	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6914216	0.94[EUR][1000 genomes]
rs6920372	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6939548	0.88[EUR][1000 genomes]
rs6939953	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs699700	0.94[EUR][1000 genomes]
rs730089	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs736830	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7748669	0.92[EUR][1000 genomes]
rs7751582	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7754650	0.94[EUR][1000 genomes]
rs7768973	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8465	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs910730	0.91[EUR][1000 genomes]
rs9320286	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9372213	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9386799	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9480947	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480949	0.93[EUR][1000 genomes]
rs9480956	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9480958	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9487064	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9487066	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9487069	0.94[EUR][1000 genomes]
rs9487070	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9487076	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487084	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487085	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487103	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs974034	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9791241	0.88[EUR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs746794	RP11-425D10.10	cis	Skin Sun Exposed Lower leg	GTEx
rs746794	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL
rs746794	RP11-425D10.10	cis	Whole Blood	GTEx
rs746794	SMPD2	cis	Esophagus Mucosa	GTEx
rs746794	C6orf199	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109705000-109745200	Weak transcription	Fetal Kidney	kidney
2	chr6:109706200-109717200	Weak transcription	Brain Angular Gyrus	brain
3	chr6:109706200-109717800	Weak transcription	Thymus	Thymus
4	chr6:109706400-109715000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:109706400-109718400	Weak transcription	Primary B cells from cord blood	blood
6	chr6:109706600-109714800	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:109706600-109717400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr6:109706600-109735800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:109706800-109715600	Weak transcription	Gastric	stomach
10	chr6:109706800-109718600	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr6:109707000-109755400	Weak transcription	Fetal Intestine Small	intestine
12	chr6:109709800-109714800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:109710200-109713400	Enhancers	Fetal Intestine Large	intestine
14	chr6:109710200-109714800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:109710800-109712800	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr6:109710800-109712800	Enhancers	Adipose Nuclei	Adipose
17	chr6:109710800-109712800	Enhancers	Placenta	Placenta
18	chr6:109710800-109713000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr6:109710800-109713000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr6:109710800-109713000	Enhancers	NHEK	skin
21	chr6:109710800-109713200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr6:109711000-109712800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr6:109711000-109713600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr6:109711200-109712800	Enhancers	Fetal Muscle Leg	muscle
25	chr6:109711200-109713000	Enhancers	Primary monocytes fromperipheralblood	blood
26	chr6:109711400-109713000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:109711400-109713400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr6:109711400-109714800	Weak transcription	Brain Substantia Nigra	brain
29	chr6:109711400-109714800	Weak transcription	HMEC	breast
30	chr6:109711600-109713000	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr6:109711800-109725000	Weak transcription	Brain Anterior Caudate	brain
32	chr6:109712000-109713200	Enhancers	Hela-S3	cervix
33	chr6:109712000-109713200	Weak transcription	Osteobl	bone
34	chr6:109712000-109714800	Weak transcription	Stomach Mucosa	stomach
35	chr6:109712200-109713000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr6:109712200-109713000	Enhancers	Monocytes-CD14+_RO01746	blood
37	chr6:109712600-109712800	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:109712600-109712800	Enhancers	Primary hematopoietic stem cells short term culture	blood
39	chr6:109712600-109712800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:109712600-109712800	Enhancers	Left Ventricle	heart
41	chr6:109712600-109712800	Enhancers	Lung	lung
42	chr6:109712600-109712800	Enhancers	Pancreas	Pancrea
43	chr6:109712600-109713000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
44	chr6:109712600-109713000	Enhancers	HepG2	liver
45	chr6:109712600-109713000	Enhancers	NH-A	brain
46	chr6:109712600-109713400	Enhancers	K562	blood

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