Variant report

Variant	rs9846099
Chromosome Location	chr3:120225226-120225227
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10511399	0.91[ASN][1000 genomes]
rs1147730	1.00[ASN][1000 genomes]
rs1147731	1.00[ASN][1000 genomes]
rs1147732	1.00[ASN][1000 genomes]
rs1147733	1.00[ASN][1000 genomes]
rs1147735	1.00[ASN][1000 genomes]
rs1259488	0.91[ASN][1000 genomes]
rs1259489	0.91[ASN][1000 genomes]
rs1259490	0.91[ASN][1000 genomes]
rs1259494	0.91[ASN][1000 genomes]
rs2141768	1.00[ASN][1000 genomes]
rs2577884	0.91[ASN][1000 genomes]
rs9289146	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007557	chr3:119892894-120764353	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv536706	chr3:119892894-120764353	Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv1012127	chr3:120015620-120272893	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv536707	chr3:120015620-120272893	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv1006428	chr3:120015620-120421982	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
6	esv3369381	chr3:120066425-120425510	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	esv3350409	chr3:120066445-120425480	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:120218200-120226000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:120219800-120225600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:120219800-120225800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:120223400-120225800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:120223600-120225400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr3:120223600-120225400	Weak transcription	Brain Germinal Matrix	brain
7	chr3:120223600-120225600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr3:120223600-120225600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr3:120223600-120225800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr3:120223800-120225600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr3:120223800-120227800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr3:120224200-120225400	Enhancers	H1 Cell Line	embryonic stem cell
13	chr3:120224600-120226000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr3:120224600-120226200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr3:120224600-120226600	Enhancers	Muscle Satellite Cultured Cells	--
16	chr3:120224600-120226600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr3:120224600-120226600	Enhancers	NHDF-Ad	bronchial
18	chr3:120224600-120226600	Enhancers	Osteobl	bone
19	chr3:120224600-120226800	Enhancers	Fetal Heart	heart
20	chr3:120224800-120225400	Enhancers	Rectal Mucosa Donor 31	rectum
21	chr3:120224800-120225600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr3:120224800-120227000	Enhancers	Colon Smooth Muscle	Colon
23	chr3:120225000-120225400	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr3:120225000-120225400	Enhancers	Rectal Mucosa Donor 29	rectum
25	chr3:120225000-120225400	Enhancers	Rectal Smooth Muscle	rectum
26	chr3:120225000-120225600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:120225000-120225800	Enhancers	HUVEC	blood vessel
28	chr3:120225000-120226000	Enhancers	Right Atrium	heart
29	chr3:120225000-120226000	Enhancers	NHEK	skin
30	chr3:120225000-120226200	Flanking Active TSS	Adipose Nuclei	Adipose
31	chr3:120225000-120226200	Enhancers	Placenta Amnion	Placenta Amnion
32	chr3:120225000-120226400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr3:120225000-120226600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr3:120225000-120226600	Enhancers	Fetal Kidney	kidney
35	chr3:120225000-120226600	Enhancers	NHLF	lung
36	chr3:120225200-120225400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr3:120225200-120225400	Enhancers	Duodenum Smooth Muscle	Duodenum
38	chr3:120225200-120225600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr3:120225200-120225600	Enhancers	HSMMtube	muscle
40	chr3:120225200-120226000	Enhancers	Cortex derived primary cultured neurospheres	brain
41	chr3:120225200-120226000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr3:120225200-120226000	Enhancers	Aorta	Aorta
43	chr3:120225200-120226000	Enhancers	Brain Cingulate Gyrus	brain
44	chr3:120225200-120226000	Enhancers	Esophagus	oesophagus
45	chr3:120225200-120226000	Enhancers	Left Ventricle	heart
46	chr3:120225200-120226200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr3:120225200-120226200	Enhancers	Right Ventricle	heart
48	chr3:120225200-120226200	Enhancers	Skeletal Muscle Male	skeletal muscle
49	chr3:120225200-120226200	Enhancers	Skeletal Muscle Female	skeletal muscle
50	chr3:120225200-120226200	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links