Variant report

Variant	rs9820814
Chromosome Location	chr3:159621062-159621063
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	chr3:159614968..159617414-chr3:159619810..159621336,2	MCF-7	breast:

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs9812520	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9831512	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9883824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877698	chr3:159583518-159640152	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv997776	chr3:159585097-159668421	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv829769	chr3:159606913-159805282	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	esv3584505	chr3:159606945-159648615	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv4086	chr3:159612521-159657780	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159610600-159622800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:159612400-159628800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr3:159613400-159628600	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr3:159615400-159629000	Weak transcription	Small Intestine	intestine
5	chr3:159615800-159628600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:159616200-159622200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr3:159616200-159622400	Weak transcription	Colon Smooth Muscle	Colon
8	chr3:159616200-159628200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr3:159616400-159622400	Weak transcription	HUVEC	blood vessel
10	chr3:159616400-159628000	Weak transcription	NHLF	lung
11	chr3:159616400-159628400	Weak transcription	Osteobl	bone
12	chr3:159616400-159628800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:159616800-159622600	Weak transcription	Fetal Brain Female	brain
14	chr3:159616800-159628800	Weak transcription	HSMMtube	muscle
15	chr3:159617000-159629000	Weak transcription	Left Ventricle	heart
16	chr3:159617000-159645000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:159617200-159628600	Weak transcription	Aorta	Aorta
18	chr3:159617400-159622800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr3:159617400-159628800	Weak transcription	HMEC	breast
20	chr3:159617400-159631400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr3:159619200-159628000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr3:159620000-159622600	Enhancers	Brain Angular Gyrus	brain
23	chr3:159620000-159623200	Enhancers	Brain Substantia Nigra	brain
24	chr3:159620200-159621600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr3:159620200-159622200	Enhancers	Brain Inferior Temporal Lobe	brain
26	chr3:159620200-159622200	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr3:159620200-159623400	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr3:159620200-159623400	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr3:159620200-159623400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr3:159620400-159621200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr3:159620400-159621200	Enhancers	Brain Hippocampus Middle	brain
32	chr3:159620400-159621800	Enhancers	Brain Cingulate Gyrus	brain
33	chr3:159620400-159623200	Enhancers	Brain Anterior Caudate	brain
34	chr3:159620600-159622800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr3:159620800-159621200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr3:159620800-159621600	Weak transcription	Primary B cells from cord blood	blood
37	chr3:159620800-159622200	Weak transcription	NHDF-Ad	bronchial
38	chr3:159620800-159622600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr3:159621000-159621200	Enhancers	Fetal Muscle Trunk	muscle
40	chr3:159621000-159621200	Enhancers	NH-A	brain
41	chr3:159621000-159622200	Weak transcription	Primary B cells from peripheral blood	blood
42	chr3:159621000-159622200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr3:159621000-159622200	Enhancers	GM12878-XiMat	blood
44	chr3:159621000-159622600	Weak transcription	Spleen	Spleen
45	chr3:159621000-159622800	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr3:159621000-159628400	Weak transcription	Liver	Liver
47	chr3:159621000-159628800	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links