Variant report

Variant	rs10774893
Chromosome Location	chr12:117388564-117388565
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	chr12:117384024..117385524-chr12:117385938..117388865,2	K562	blood:

Extended variants
information (count: 83 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10507277	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10732611	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10735099	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10735103	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10744885	0.87[ASN][1000 genomes]
rs10744886	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10774892	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10774896	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10850733	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10850741	0.94[EUR][1000 genomes]
rs10850743	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11068258	0.81[ASN][1000 genomes]
rs11068296	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12299065	0.92[EUR][1000 genomes]
rs12821492	0.89[ASN][1000 genomes]
rs2242469	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2393110	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2393111	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3893370	0.87[ASN][1000 genomes]
rs4074147	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4076700	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4077519	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4130296	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4238051	0.94[EUR][1000 genomes]
rs4299000	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4324001	0.81[ASN][1000 genomes]
rs4522274	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4542506	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4562925	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4562926	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4766812	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4766814	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4766815	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4766818	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4766820	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4766821	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4767473	0.94[EUR][1000 genomes]
rs4767474	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4767476	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4767478	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4767480	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4767482	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4767483	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4767484	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4767485	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4767487	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4767488	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4767489	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4767490	0.94[EUR][1000 genomes]
rs4767491	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4767493	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60940473	0.92[EUR][1000 genomes]
rs6490097	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6490102	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7131746	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7136629	0.81[ASN][1000 genomes]
rs7137006	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7137752	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7297155	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7298447	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7302025	0.92[EUR][1000 genomes]
rs7303752	0.85[EUR][1000 genomes]
rs7303882	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7307907	0.91[EUR][1000 genomes]
rs7308498	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7311972	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7312388	0.81[ASN][1000 genomes]
rs7316144	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7484620	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7952766	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7954824	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7957907	0.92[EUR][1000 genomes]
rs7958030	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7959666	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7973240	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7976815	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7977598	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9804817	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832524	chr12:117314110-117496576	Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1046811	chr12:117353904-117396230	Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a
3	esv1798657	chr12:117354067-117392259	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a
4	nsv1048942	chr12:117365506-117400588	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
5	nsv519118	chr12:117386085-117521180	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10774893	FBXW8	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:117358400-117392600	Weak transcription	Small Intestine	intestine
2	chr12:117363200-117399400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr12:117365000-117406000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr12:117373800-117393200	Weak transcription	Stomach Mucosa	stomach
5	chr12:117378000-117392600	Weak transcription	Psoas Muscle	Psoas
6	chr12:117381200-117390200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr12:117381200-117391200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr12:117381400-117389600	Strong transcription	Primary T cells fromperipheralblood	blood
9	chr12:117381600-117388600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr12:117381600-117390200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr12:117381600-117390400	Strong transcription	Primary T cells from cord blood	blood
12	chr12:117381600-117390800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr12:117381800-117389200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr12:117381800-117390000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr12:117381800-117390200	Strong transcription	Primary B cells from peripheral blood	blood
16	chr12:117381800-117390400	Strong transcription	HUES64 Cell Line	embryonic stem cell
17	chr12:117381800-117391400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr12:117381800-117396200	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr12:117382000-117388600	Strong transcription	Primary hematopoietic stem cells	blood
20	chr12:117382000-117391400	Strong transcription	Fetal Stomach	stomach
21	chr12:117382000-117396400	Weak transcription	GM12878-XiMat	blood
22	chr12:117382400-117389400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr12:117382400-117390400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr12:117382400-117390600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr12:117382600-117408000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr12:117382800-117390200	Strong transcription	Sigmoid Colon	Sigmoid Colon
27	chr12:117383000-117389800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr12:117383000-117390200	Strong transcription	Adipose Nuclei	Adipose
29	chr12:117383000-117391000	Strong transcription	Cortex derived primary cultured neurospheres	brain
30	chr12:117383000-117391200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr12:117383000-117391400	Strong transcription	Fetal Muscle Trunk	muscle
32	chr12:117383200-117389000	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr12:117383200-117389600	Strong transcription	Placenta	Placenta
34	chr12:117383200-117389800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr12:117383200-117390000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr12:117383200-117390200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr12:117383200-117390200	Strong transcription	Liver	Liver
38	chr12:117383200-117390400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
39	chr12:117383200-117390600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr12:117384400-117392600	Weak transcription	Fetal Heart	heart
41	chr12:117384400-117411200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr12:117384600-117427400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr12:117384800-117393200	Weak transcription	Rectal Smooth Muscle	rectum
44	chr12:117384800-117402200	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr12:117384800-117407400	Weak transcription	Brain Angular Gyrus	brain
46	chr12:117384800-117411000	Weak transcription	Hela-S3	cervix
47	chr12:117384800-117450400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr12:117385000-117393000	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr12:117385000-117396400	Weak transcription	Colonic Mucosa	Colon
50	chr12:117385200-117388600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links