Variant report

Variant	rs9858000
Chromosome Location	chr3:133894390-133894391
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10935097	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10935104	0.97[ASN][1000 genomes]
rs12635994	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13068409	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13075720	0.88[ASN][1000 genomes]
rs13099506	0.91[ASN][1000 genomes]
rs28514329	0.90[ASN][1000 genomes]
rs35015318	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35111284	0.91[ASN][1000 genomes]
rs35775034	0.95[ASN][1000 genomes]
rs4077158	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4077643	0.91[ASN][1000 genomes]
rs4280635	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4324466	0.82[EUR][1000 genomes]
rs4404422	0.91[ASN][1000 genomes]
rs6439464	0.98[ASN][1000 genomes]
rs6439469	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67022177	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6783086	0.91[ASN][1000 genomes]
rs6783294	0.93[ASN][1000 genomes]
rs6786384	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6795164	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6796404	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6800143	0.82[EUR][1000 genomes]
rs6804370	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73215351	0.93[ASN][1000 genomes]
rs7429840	0.88[ASN][1000 genomes]
rs7620941	0.87[ASN][1000 genomes]
rs7623609	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7639683	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7641162	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9809556	0.91[ASN][1000 genomes]
rs9817270	0.86[ASN][1000 genomes]
rs9822076	0.98[ASN][1000 genomes]
rs9822469	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9822749	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9829505	0.93[ASN][1000 genomes]
rs9839609	0.91[ASN][1000 genomes]
rs9840170	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9846664	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9846871	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9859680	0.90[ASN][1000 genomes]
rs9860060	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9860268	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9865773	0.88[ASN][1000 genomes]
rs9865808	0.91[ASN][1000 genomes]
rs9877899	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9880098	0.91[ASN][1000 genomes]
rs9881681	0.86[ASN][1000 genomes]
rs9881896	0.93[ASN][1000 genomes]
rs9882168	0.91[ASN][1000 genomes]
rs9882590	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9882927	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[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	esv3522171	chr3:133889405-134156571	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3522172	chr3:133889405-134156571	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Active TSS Genic enhancers 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	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133863000-133902200	Weak transcription	GM12878-XiMat	blood
2	chr3:133864200-133899800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:133866200-133898600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:133871800-133919200	Weak transcription	K562	blood
5	chr3:133873400-133907400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr3:133874400-133929400	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr3:133874600-133933600	Weak transcription	Colonic Mucosa	Colon
8	chr3:133877600-133907400	Weak transcription	Colon Smooth Muscle	Colon
9	chr3:133877600-133935200	Weak transcription	Psoas Muscle	Psoas
10	chr3:133877800-133894400	Weak transcription	Brain Cingulate Gyrus	brain
11	chr3:133877800-133894600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr3:133877800-133920200	Weak transcription	Brain Substantia Nigra	brain
13	chr3:133877800-133950200	Weak transcription	Small Intestine	intestine
14	chr3:133878000-133894400	Weak transcription	NHDF-Ad	bronchial
15	chr3:133878200-133901600	Weak transcription	Fetal Brain Male	brain
16	chr3:133878400-133894400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr3:133878400-133907400	Weak transcription	Brain Angular Gyrus	brain
18	chr3:133879000-133894400	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr3:133879000-133894600	Weak transcription	Gastric	stomach
20	chr3:133881800-133908800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr3:133882400-133897400	Weak transcription	Fetal Kidney	kidney
22	chr3:133884600-133900000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr3:133885000-133902400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr3:133885400-133894400	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr3:133885600-133897800	Weak transcription	A549	lung
26	chr3:133885600-133907400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr3:133885600-133919600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr3:133886800-133896400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr3:133887200-133897000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr3:133887600-133895000	Strong transcription	HUES64 Cell Line	embryonic stem cell
31	chr3:133887600-133895200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr3:133887600-133896600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr3:133887600-133900400	Strong transcription	Primary T cells from cord blood	blood
34	chr3:133887600-133902800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr3:133887600-133903400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr3:133887800-133895200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr3:133887800-133897400	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr3:133887800-133900800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr3:133887800-133900800	Strong transcription	Primary T helper cells fromperipheralblood	blood
40	chr3:133888000-133896600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr3:133888000-133901000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:133888200-133896600	Strong transcription	HMEC	breast
43	chr3:133888400-133923600	Weak transcription	Fetal Heart	heart
44	chr3:133888600-133896600	Strong transcription	Osteobl	bone
45	chr3:133888600-133905400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr3:133888800-133894600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr3:133888800-133895200	Strong transcription	Adipose Nuclei	Adipose
48	chr3:133889000-133895200	Strong transcription	Muscle Satellite Cultured Cells	--
49	chr3:133889000-133896600	Strong transcription	NH-A	brain
50	chr3:133889200-133895200	Strong transcription	Liver	Liver

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