Variant report

Variant	rs828655
Chromosome Location	chr6:72056910-72056911
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:72054464..72056174-chr6:72056662..72059629,2	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1535524	0.85[CEU][hapmap];0.90[EUR][1000 genomes]
rs2295956	0.82[GIH][hapmap];0.90[EUR][1000 genomes]
rs4707912	0.90[EUR][1000 genomes]
rs701694	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs828629	0.90[EUR][1000 genomes]
rs828631	0.90[EUR][1000 genomes]
rs828632	0.90[EUR][1000 genomes]
rs828634	0.80[EUR][1000 genomes]
rs828635	0.90[EUR][1000 genomes]
rs828653	0.91[EUR][1000 genomes]
rs828654	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs828655	MTO1	cis	cerebellum	SCAN
rs828655	OGFRL1	cis	cerebellum	SCAN
rs828655	MTO1	cis	parietal	SCAN

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:72031600-72060200	Weak transcription	Stomach Smooth Muscle	stomach
2	chr6:72031600-72077400	Weak transcription	Pancreas	Pancrea
3	chr6:72034200-72058600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:72034800-72060400	Weak transcription	Left Ventricle	heart
5	chr6:72039400-72060600	Weak transcription	Aorta	Aorta
6	chr6:72043400-72060200	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:72044200-72059400	Weak transcription	NH-A	brain
8	chr6:72044400-72060800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr6:72044800-72059000	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr6:72044800-72059200	Weak transcription	HUVEC	blood vessel
11	chr6:72044800-72060000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr6:72045000-72059000	Weak transcription	Osteobl	bone
13	chr6:72045800-72072200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:72048000-72057200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr6:72052800-72059000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr6:72052800-72059600	Weak transcription	NHDF-Ad	bronchial
17	chr6:72052800-72059800	Weak transcription	NHLF	lung
18	chr6:72053200-72059800	Weak transcription	HSMMtube	muscle
19	chr6:72053600-72061600	Weak transcription	Fetal Kidney	kidney
20	chr6:72054200-72057000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr6:72054200-72057200	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr6:72055200-72057000	Enhancers	Brain Anterior Caudate	brain
23	chr6:72055200-72057400	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr6:72055400-72057400	Enhancers	Brain Substantia Nigra	brain
25	chr6:72055400-72058400	Enhancers	Primary monocytes fromperipheralblood	blood
26	chr6:72055600-72060400	Weak transcription	Brain Angular Gyrus	brain
27	chr6:72056000-72060000	Weak transcription	Brain Germinal Matrix	brain
28	chr6:72056200-72058800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr6:72056200-72059800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:72056200-72059800	Weak transcription	Adipose Nuclei	Adipose
31	chr6:72056200-72059800	Weak transcription	Fetal Lung	lung
32	chr6:72056600-72057000	Enhancers	Placenta	Placenta
33	chr6:72056600-72057000	Enhancers	Lung	lung
34	chr6:72056600-72057200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr6:72056600-72057800	Enhancers	GM12878-XiMat	blood
36	chr6:72056600-72059800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr6:72056800-72057200	Enhancers	Primary B cells from peripheral blood	blood
38	chr6:72056800-72057400	Weak transcription	Fetal Muscle Leg	muscle
39	chr6:72056800-72057400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
40	chr6:72056800-72058200	Strong transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links