Variant report

Variant	rs3732444
Chromosome Location	chr3:99581439-99581440
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:99562459..99564499-chr3:99581056..99583363,3	MCF-7	breast:
2	chr3:99574432..99577221-chr3:99578950..99581441,2	K562	blood:
3	chr3:99579898..99582350-chr3:99587582..99589393,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1038295	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10804762	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12485299	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12486901	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489030	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12491153	0.84[EUR][1000 genomes]
rs12493124	0.93[EUR][1000 genomes]
rs1492343	0.83[ASN][1000 genomes]
rs1871847	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35590972	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3921767	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4928222	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55874130	0.93[EUR][1000 genomes]
rs55881709	0.89[EUR][1000 genomes]
rs55964918	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56140081	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56223679	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56260910	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56335268	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60119031	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs61010376	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6792339	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6800456	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73858966	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73859911	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73860464	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73860470	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7632345	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7635633	0.89[EUR][1000 genomes]
rs7635871	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99537200-99594400	Weak transcription	Esophagus	oesophagus
2	chr3:99538200-99584600	Weak transcription	Primary T cells from cord blood	blood
3	chr3:99563200-99593600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:99565200-99585000	Weak transcription	Primary hematopoietic stem cells	blood
5	chr3:99565600-99584800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:99565600-99589400	Weak transcription	K562	blood
7	chr3:99567800-99581600	Weak transcription	Spleen	Spleen
8	chr3:99569000-99589600	Weak transcription	Colonic Mucosa	Colon
9	chr3:99570600-99581600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr3:99573200-99594000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr3:99573400-99589200	Genic enhancers	HepG2	liver
12	chr3:99573600-99584800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr3:99574000-99584000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr3:99574400-99590000	Weak transcription	Liver	Liver
15	chr3:99575000-99587000	Weak transcription	Pancreas	Pancrea
16	chr3:99575000-99593600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr3:99575200-99587000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr3:99575400-99582000	Weak transcription	GM12878-XiMat	blood
19	chr3:99576000-99587600	Genic enhancers	NHDF-Ad	bronchial
20	chr3:99576400-99585000	Weak transcription	A549	lung
21	chr3:99577400-99582200	Genic enhancers	HSMM	muscle
22	chr3:99577400-99587200	Weak transcription	Brain Anterior Caudate	brain
23	chr3:99578000-99581600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr3:99578200-99582600	Genic enhancers	NHLF	lung
25	chr3:99578200-99585400	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr3:99578400-99582000	Weak transcription	Primary B cells from cord blood	blood
27	chr3:99578800-99584400	Strong transcription	Fetal Intestine Large	intestine
28	chr3:99579000-99582200	Genic enhancers	HUVEC	blood vessel
29	chr3:99579200-99581800	Genic enhancers	Rectal Smooth Muscle	rectum
30	chr3:99579200-99582000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr3:99579200-99582000	Enhancers	Right Ventricle	heart
32	chr3:99579200-99582200	Enhancers	Psoas Muscle	Psoas
33	chr3:99579200-99582400	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr3:99579200-99582400	Genic enhancers	Aorta	Aorta
35	chr3:99579200-99582400	Strong transcription	Fetal Muscle Trunk	muscle
36	chr3:99579200-99591000	Genic enhancers	NH-A	brain
37	chr3:99579400-99582200	Genic enhancers	HSMMtube	muscle
38	chr3:99579400-99583000	Weak transcription	Stomach Mucosa	stomach
39	chr3:99579400-99587000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr3:99579400-99591000	Weak transcription	Fetal Lung	lung
41	chr3:99579600-99581800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr3:99579600-99582200	Genic enhancers	Osteobl	bone
43	chr3:99579600-99582400	Strong transcription	NHEK	skin
44	chr3:99579600-99584000	Weak transcription	HMEC	breast
45	chr3:99579600-99585200	Weak transcription	Small Intestine	intestine
46	chr3:99579600-99585400	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr3:99579600-99592400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr3:99580000-99582200	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr3:99580000-99582200	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr3:99580000-99582600	Strong transcription	Placenta	Placenta

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