Variant report

Variant	rs9839721
Chromosome Location	chr3:100244947-100244948
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	chr3:100119288..100121343-chr3:100244935..100247032,2	MCF-7	breast:
2	chr3:100240678..100242912-chr3:100244907..100246984,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000206535	Chromatin interaction
ENSG00000154174	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1145350	1.00[MEX][hapmap]
rs11923237	1.00[AMR][1000 genomes]
rs11923322	1.00[AMR][1000 genomes]
rs6806901	1.00[MEX][hapmap]
rs72917805	1.00[AMR][1000 genomes]
rs72917810	1.00[AMR][1000 genomes]
rs72943302	0.81[AFR][1000 genomes]
rs72945203	0.81[AFR][1000 genomes]
rs72945208	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9811273	1.00[AMR][1000 genomes]
rs9847864	1.00[AMR][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	nsv877218	chr3:100176360-100267619	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100238000-100252600	Weak transcription	Fetal Intestine Small	intestine
2	chr3:100238000-100265400	Weak transcription	HSMMtube	muscle
3	chr3:100239400-100245000	Strong transcription	Fetal Stomach	stomach
4	chr3:100239400-100245200	Strong transcription	Aorta	Aorta
5	chr3:100241000-100299800	Weak transcription	Fetal Muscle Leg	muscle
6	chr3:100241200-100251800	Weak transcription	Hela-S3	cervix
7	chr3:100242000-100253200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr3:100242200-100246400	Weak transcription	Fetal Muscle Trunk	muscle
9	chr3:100242400-100265000	Weak transcription	HepG2	liver
10	chr3:100242400-100268000	Weak transcription	Ovary	ovary
11	chr3:100243800-100245200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr3:100243800-100245600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr3:100243800-100246600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr3:100244000-100245000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr3:100244200-100245400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:100244400-100245200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr3:100244400-100245200	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr3:100244400-100245200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr3:100244400-100245400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr3:100244400-100245400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr3:100244400-100245400	Enhancers	Adipose Nuclei	Adipose
22	chr3:100244400-100245400	Flanking Active TSS	HMEC	breast
23	chr3:100244400-100245400	Flanking Active TSS	NHDF-Ad	bronchial
24	chr3:100244400-100245400	Flanking Active TSS	NHEK	skin
25	chr3:100244400-100245600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr3:100244400-100245800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:100244400-100247200	Enhancers	Liver	Liver
28	chr3:100244600-100245000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr3:100244600-100245000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr3:100244600-100245000	Flanking Active TSS	Colon Smooth Muscle	Colon
31	chr3:100244600-100245000	Enhancers	Fetal Heart	heart
32	chr3:100244600-100245000	Active TSS	Stomach Smooth Muscle	stomach
33	chr3:100244600-100245200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr3:100244600-100245200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr3:100244600-100245200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr3:100244600-100246400	Enhancers	Monocytes-CD14+_RO01746	blood
37	chr3:100244600-100261400	Weak transcription	Fetal Lung	lung
38	chr3:100244800-100245000	Enhancers	Muscle Satellite Cultured Cells	--
39	chr3:100244800-100245000	Enhancers	NH-A	brain
40	chr3:100244800-100245000	Enhancers	Osteobl	bone
41	chr3:100244800-100245200	Enhancers	HUES64 Cell Line	embryonic stem cell
42	chr3:100244800-100245600	Enhancers	Rectal Smooth Muscle	rectum
43	chr3:100244800-100246000	Enhancers	Primary monocytes fromperipheralblood	blood
44	chr3:100244800-100246600	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr3:100244800-100253000	Weak transcription	Esophagus	oesophagus
46	chr3:100244800-100255400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr3:100244800-100257800	Weak transcription	Spleen	Spleen
48	chr3:100244800-100267000	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links