Variant report

Variant	rs11940390
Chromosome Location	chr4:106545071-106545072
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	chr4:106538370..106540936-chr4:106544522..106547298,2	MCF-7	breast:
2	chr4:106533642..106537061-chr4:106540249..106545548,5	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11931966	1.00[EUR][1000 genomes]
rs11936257	1.00[EUR][1000 genomes]
rs11936307	1.00[EUR][1000 genomes]
rs11937075	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11944959	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11946424	1.00[EUR][1000 genomes]
rs11946450	1.00[EUR][1000 genomes]
rs11946460	1.00[EUR][1000 genomes]
rs56309008	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56981213	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73837048	1.00[EUR][1000 genomes]
rs73837064	1.00[EUR][1000 genomes]
rs73837065	1.00[EUR][1000 genomes]
rs73837067	1.00[EUR][1000 genomes]
rs73837078	1.00[EUR][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	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106516000-106553000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:106516400-106545600	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr4:106521800-106545600	Weak transcription	Right Atrium	heart
4	chr4:106525400-106558600	Weak transcription	Fetal Intestine Large	intestine
5	chr4:106527200-106559000	Weak transcription	Fetal Intestine Small	intestine
6	chr4:106540600-106553800	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr4:106541200-106545400	Weak transcription	Liver	Liver
8	chr4:106541200-106545800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr4:106541600-106545600	Weak transcription	Fetal Lung	lung
10	chr4:106541800-106545200	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr4:106542400-106546600	Enhancers	Osteobl	bone
12	chr4:106542600-106551800	Weak transcription	HMEC	breast
13	chr4:106542800-106545200	Enhancers	Psoas Muscle	Psoas
14	chr4:106542800-106545400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr4:106543000-106545600	Enhancers	Skeletal Muscle Male	skeletal muscle
16	chr4:106543200-106547000	Enhancers	Fetal Muscle Leg	muscle
17	chr4:106543400-106546800	Enhancers	Fetal Heart	heart
18	chr4:106543600-106545400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr4:106544200-106545800	Enhancers	Muscle Satellite Cultured Cells	--
20	chr4:106544200-106545800	Enhancers	Gastric	stomach
21	chr4:106544200-106546200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr4:106544200-106546200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr4:106544200-106546200	Enhancers	NH-A	brain
24	chr4:106544200-106546800	Enhancers	HSMM	muscle
25	chr4:106544400-106545200	Enhancers	Pancreas	Pancrea
26	chr4:106544400-106545600	Enhancers	Duodenum Mucosa	Duodenum
27	chr4:106544400-106545600	Weak transcription	NHLF	lung
28	chr4:106544400-106545800	Enhancers	Left Ventricle	heart
29	chr4:106544400-106546000	Enhancers	Brain Substantia Nigra	brain
30	chr4:106544600-106545600	Enhancers	GM12878-XiMat	blood
31	chr4:106544600-106546200	Enhancers	Stomach Mucosa	stomach
32	chr4:106544800-106545200	Enhancers	Brain Hippocampus Middle	brain
33	chr4:106544800-106545600	Enhancers	HSMMtube	muscle
34	chr4:106544800-106545800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr4:106544800-106546800	Enhancers	Cortex derived primary cultured neurospheres	brain
36	chr4:106545000-106545200	Enhancers	Lung	lung
37	chr4:106545000-106545600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr4:106545000-106546000	Enhancers	Brain Anterior Caudate	brain
39	chr4:106545000-106546200	Enhancers	Small Intestine	intestine
40	chr4:106545000-106546600	Enhancers	NHDF-Ad	bronchial
41	chr4:106545000-106546800	Enhancers	Fetal Muscle Trunk	muscle

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