Variant report

Variant	rs2844766
Chromosome Location	chr6:30230661-30230662
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:30230386..30233468-chr6:30310736..30314450,3	MCF-7	breast:
2	chr6:30229942..30231767-chr6:30310305..30313256,2	MCF-7	breast:
3	chr6:30230361..30234306-chr6:30292594..30296487,4	MCF-7	breast:
4	chr6:30229166..30232087-chr6:30293812..30296124,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000241370	Chromatin interaction
ENSG00000204599	Chromatin interaction
ENSG00000270604	Chromatin interaction
ENSG00000231074	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1075105	0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12055553	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12192505	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1264617	0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1264618	0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1264619	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2187979	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2428506	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2428507	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2516696	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2516708	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2516715	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2523740	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs261947	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2844759	0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2844760	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2844762	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2844764	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4711213	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6900042	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6906180	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6912771	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6913293	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6924282	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6924453	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6931387	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9295842	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9357098	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9368635	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9380167	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9380172	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3449385	chr6:30230408-30230672	Weak transcription Strong transcription Enhancers	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2844766	LOC401245	cis	multi-tissue	Pritchard
rs2844766	TRIM26	Cis_1M	lymphoblastoid	RTeQTL
rs2844766	HLA-A	cis	lymphoblastoid	GTEx

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30228200-30231200	Weak transcription	Ovary	ovary
2	chr6:30228200-30232000	Weak transcription	HSMMtube	muscle
3	chr6:30228200-30234200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:30228200-30237400	Weak transcription	Aorta	Aorta
5	chr6:30228400-30230800	Weak transcription	NH-A	brain
6	chr6:30228400-30231400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:30228400-30231400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:30228400-30231400	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr6:30228400-30231400	Weak transcription	HMEC	breast
10	chr6:30228400-30231400	Weak transcription	NHDF-Ad	bronchial
11	chr6:30228400-30231600	Weak transcription	HSMM	muscle
12	chr6:30228400-30231800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:30228400-30232400	Weak transcription	Brain Germinal Matrix	brain
14	chr6:30228400-30232400	Weak transcription	Gastric	stomach
15	chr6:30228400-30232800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:30228400-30236800	Weak transcription	Brain Hippocampus Middle	brain
17	chr6:30228400-30238000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr6:30228400-30238200	Weak transcription	Left Ventricle	heart
19	chr6:30228400-30239600	Weak transcription	HepG2	liver
20	chr6:30228400-30239800	Weak transcription	Colon Smooth Muscle	Colon
21	chr6:30228600-30230800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:30228600-30230800	Weak transcription	Brain Anterior Caudate	brain
23	chr6:30228600-30230800	Weak transcription	Pancreas	Pancrea
24	chr6:30228600-30232200	Weak transcription	Fetal Brain Male	brain
25	chr6:30228600-30233000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr6:30228600-30233200	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr6:30228600-30233200	Weak transcription	Thymus	Thymus
28	chr6:30228600-30233800	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr6:30228600-30234400	Weak transcription	Fetal Brain Female	brain
30	chr6:30228600-30236600	Weak transcription	Brain Substantia Nigra	brain
31	chr6:30228800-30231000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr6:30228800-30231200	Weak transcription	Hela-S3	cervix
33	chr6:30228800-30231400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr6:30228800-30231600	Weak transcription	Osteobl	bone
35	chr6:30228800-30234200	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr6:30228800-30234600	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr6:30228800-30234600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr6:30229000-30231000	Weak transcription	Primary B cells from cord blood	blood
39	chr6:30229000-30231800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr6:30229000-30231800	Weak transcription	Stomach Smooth Muscle	stomach
41	chr6:30229000-30232600	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr6:30229000-30232800	Weak transcription	Primary monocytes fromperipheralblood	blood
43	chr6:30229000-30232800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr6:30229000-30234600	Weak transcription	Adipose Nuclei	Adipose
45	chr6:30229000-30234600	Weak transcription	Spleen	Spleen
46	chr6:30229200-30230800	Strong transcription	GM12878-XiMat	blood
47	chr6:30229200-30231200	Weak transcription	Brain Angular Gyrus	brain
48	chr6:30229200-30232600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr6:30229200-30233000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr6:30229200-30233400	Weak transcription	H1 Cell Line	embryonic stem cell

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