Variant report

Variant	rs73852399
Chromosome Location	chr3:110805718-110805719
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs12185974	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1370	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1801650	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1824709	0.89[EUR][1000 genomes]
rs55987847	0.88[AFR][1000 genomes]
rs56324569	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56724510	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs58112872	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61190717	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61219682	0.81[AFR][1000 genomes]
rs6437943	0.83[EUR][1000 genomes]
rs73852350	0.88[AFR][1000 genomes]
rs73852352	0.88[AFR][1000 genomes]
rs73852384	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73852394	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73852397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73852398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73852401	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73852402	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854903	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854905	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854910	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73854911	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854912	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854913	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854914	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854915	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854916	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854919	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854920	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73854921	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854922	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854923	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73854926	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854927	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854928	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73854929	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7615927	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7616280	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7622397	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7642664	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9844779	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	esv1850918	chr3:110685181-110889974	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110794200-110809200	Weak transcription	Fetal Brain Male	brain
2	chr3:110794400-110813600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr3:110796200-110806800	Weak transcription	Small Intestine	intestine
4	chr3:110799000-110807000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:110799000-110807000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:110799800-110820600	Weak transcription	A549	lung
7	chr3:110800200-110812400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:110800200-110817200	Weak transcription	Gastric	stomach
9	chr3:110802000-110822600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr3:110802400-110806600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr3:110802400-110806600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr3:110802800-110806800	Weak transcription	Ovary	ovary
13	chr3:110803800-110807600	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr3:110804000-110806600	Weak transcription	Psoas Muscle	Psoas
15	chr3:110804000-110806800	Weak transcription	HepG2	liver
16	chr3:110804000-110817200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr3:110804200-110806600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr3:110804200-110814200	Weak transcription	Fetal Intestine Large	intestine
19	chr3:110804400-110806800	Weak transcription	Liver	Liver
20	chr3:110804600-110806800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr3:110804600-110806800	Weak transcription	Adipose Nuclei	Adipose
22	chr3:110804600-110807200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:110804600-110807200	Enhancers	Rectal Smooth Muscle	rectum
24	chr3:110804800-110811400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr3:110805000-110806600	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr3:110805000-110807000	Weak transcription	Stomach Mucosa	stomach
27	chr3:110805000-110808400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr3:110805000-110833600	Weak transcription	NHDF-Ad	bronchial
29	chr3:110805200-110806000	Weak transcription	Duodenum Mucosa	Duodenum
30	chr3:110805200-110806600	Weak transcription	Osteobl	bone
31	chr3:110805200-110806800	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr3:110805200-110807000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr3:110805400-110806600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr3:110805400-110806600	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr3:110805400-110806600	Weak transcription	Fetal Lung	lung
36	chr3:110805400-110808400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr3:110805600-110805800	Enhancers	Dnd41	blood
38	chr3:110805600-110806600	Weak transcription	HUES48 Cell Line	embryonic stem cell
39	chr3:110805600-110806600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr3:110805600-110806600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr3:110805600-110806600	Weak transcription	Brain Cingulate Gyrus	brain
42	chr3:110805600-110806600	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr3:110805600-110806800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr3:110805600-110806800	Weak transcription	Fetal Intestine Small	intestine
45	chr3:110805600-110810800	Weak transcription	Colon Smooth Muscle	Colon

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