Variant report

Variant	rs9999670
Chromosome Location	chr4:106559184-106559185
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	chr4:106557959..106560192-chr4:106563157..106566031,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10004066	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10016369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10033909	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10034218	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12498697	1.00[ASN][1000 genomes]
rs12502682	1.00[ASN][1000 genomes]
rs12503020	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2112052	1.00[ASN][1000 genomes]
rs28394843	1.00[ASN][1000 genomes]
rs28437813	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28579777	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28607458	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28664632	1.00[ASN][1000 genomes]
rs28712617	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28783387	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28804192	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71599072	1.00[ASN][1000 genomes]
rs9884977	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9992325	1.00[CHD][hapmap];1.00[MEX][hapmap];1.00[EUR][1000 genomes];1.00[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	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:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106545200-106577800	Weak transcription	Pancreas	Pancrea
2	chr4:106550600-106559400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr4:106558200-106559400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr4:106558200-106559400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
5	chr4:106558200-106559400	Enhancers	Fetal Brain Male	brain
6	chr4:106558400-106559200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr4:106558400-106559400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr4:106558400-106559400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr4:106558400-106559400	Enhancers	Fetal Heart	heart
10	chr4:106558400-106559400	Enhancers	Rectal Smooth Muscle	rectum
11	chr4:106558400-106559400	Enhancers	Small Intestine	intestine
12	chr4:106558400-106559400	Enhancers	NHEK	skin
13	chr4:106558400-106559600	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr4:106558400-106559800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr4:106558600-106559200	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr4:106558600-106559200	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr4:106558600-106559200	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr4:106558600-106559200	Enhancers	Muscle Satellite Cultured Cells	--
19	chr4:106558600-106559200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr4:106558600-106559200	Enhancers	Aorta	Aorta
21	chr4:106558600-106559200	Flanking Active TSS	Brain Anterior Caudate	brain
22	chr4:106558600-106559200	Flanking Active TSS	Brain Cingulate Gyrus	brain
23	chr4:106558600-106559200	Enhancers	Colon Smooth Muscle	Colon
24	chr4:106558600-106559200	Enhancers	Fetal Muscle Leg	muscle
25	chr4:106558600-106559200	Enhancers	Fetal Stomach	stomach
26	chr4:106558600-106559200	Enhancers	Gastric	stomach
27	chr4:106558600-106559200	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr4:106558600-106559200	Enhancers	Stomach Mucosa	stomach
29	chr4:106558600-106559200	Flanking Active TSS	GM12878-XiMat	blood
30	chr4:106558600-106559200	Enhancers	HSMM	muscle
31	chr4:106558600-106559200	Enhancers	Monocytes-CD14+_RO01746	blood
32	chr4:106558600-106559400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
33	chr4:106558600-106559400	Enhancers	Primary B cells from peripheral blood	blood
34	chr4:106558600-106559400	Enhancers	Primary hematopoietic stem cells	blood
35	chr4:106558600-106559400	Enhancers	Primary hematopoietic stem cells short term culture	blood
36	chr4:106558600-106559400	Enhancers	Duodenum Mucosa	Duodenum
37	chr4:106558600-106559400	Enhancers	Duodenum Smooth Muscle	Duodenum
38	chr4:106558600-106559400	Enhancers	Fetal Intestine Large	intestine
39	chr4:106558600-106559400	Flanking Active TSS	Fetal Lung	lung
40	chr4:106558600-106559400	Enhancers	Left Ventricle	heart
41	chr4:106558600-106559400	Enhancers	Sigmoid Colon	Sigmoid Colon
42	chr4:106558600-106559400	Enhancers	HMEC	breast
43	chr4:106558600-106559800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr4:106558800-106559200	Enhancers	HUES48 Cell Line	embryonic stem cell
45	chr4:106558800-106559200	Enhancers	iPS-18 Cell Line	embryonic stem cell
46	chr4:106558800-106559200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr4:106558800-106559200	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
48	chr4:106558800-106559200	Enhancers	Rectal Mucosa Donor 29	rectum
49	chr4:106558800-106559200	Enhancers	Rectal Mucosa Donor 31	rectum
50	chr4:106558800-106559200	Enhancers	Skeletal Muscle Male	skeletal muscle

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