Variant report

Variant	rs12773943
Chromosome Location	chr10:116631184-116631185
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 88 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs1046492	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10490908	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10510007	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10885613	0.88[AFR][1000 genomes]
rs10885614	0.90[AFR][1000 genomes]
rs11196929	0.82[AFR][1000 genomes]
rs11196930	0.88[AFR][1000 genomes]
rs11196932	0.88[AFR][1000 genomes]
rs11196935	0.83[AFR][1000 genomes]
rs11196936	0.88[AFR][1000 genomes]
rs11196937	0.88[AFR][1000 genomes]
rs11196939	0.88[AFR][1000 genomes]
rs11196941	0.86[AFR][1000 genomes]
rs11196943	0.85[AFR][1000 genomes]
rs11196944	0.87[AFR][1000 genomes]
rs11196945	0.83[AFR][1000 genomes]
rs11196948	0.84[AFR][1000 genomes]
rs11196950	0.84[AFR][1000 genomes]
rs11196951	0.84[AFR][1000 genomes]
rs11196952	0.86[AFR][1000 genomes]
rs11196953	0.86[AFR][1000 genomes]
rs11818115	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12218498	0.87[AFR][1000 genomes]
rs12415173	0.90[AFR][1000 genomes]
rs12765350	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12771956	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12772800	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12775180	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1359079	0.86[AFR][1000 genomes]
rs17092497	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17092542	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17586888	0.82[AFR][1000 genomes]
rs17663670	0.85[AFR][1000 genomes]
rs17721283	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17794346	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1966384	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2146805	0.85[AFR][1000 genomes]
rs2146806	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2420065	0.88[AFR][1000 genomes]
rs2420066	0.88[AFR][1000 genomes]
rs2420067	0.86[AFR][1000 genomes]
rs2420069	0.86[AFR][1000 genomes]
rs3180654	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34064819	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34187191	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34683721	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35010779	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35622181	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35628210	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36036948	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36089581	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3758603	0.86[AFR][1000 genomes]
rs41284358	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55711292	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58587374	0.85[AFR][1000 genomes]
rs60820172	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61596353	0.84[AFR][1000 genomes]
rs61867965	0.87[AFR][1000 genomes]
rs61867966	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61867967	1.00[ASN][1000 genomes]
rs61868018	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68085797	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7072356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7072364	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7074729	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7075888	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7079877	0.86[AFR][1000 genomes]
rs7093674	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7094072	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs749649	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7895551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7897937	0.88[AFR][1000 genomes]
rs7903663	0.86[AFR][1000 genomes]
rs7904188	0.90[AFR][1000 genomes]
rs7909566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7909657	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7914792	0.88[AFR][1000 genomes]
rs7918253	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7918388	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7919649	0.90[AFR][1000 genomes]
rs7920216	0.90[AFR][1000 genomes]
rs7923295	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8181444	0.88[AFR][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	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv831996	chr10:116601552-116772968	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12773943	FAM160B1	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116589600-116640600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:116609600-116634800	Weak transcription	Spleen	Spleen
3	chr10:116609600-116639400	Weak transcription	Pancreas	Pancrea
4	chr10:116610200-116634600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr10:116611600-116641000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr10:116617400-116640600	Weak transcription	Fetal Intestine Small	intestine
7	chr10:116619400-116634400	Weak transcription	Fetal Brain Male	brain
8	chr10:116619400-116636000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr10:116619400-116636400	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr10:116619400-116641600	Weak transcription	Aorta	Aorta
11	chr10:116619800-116634800	Weak transcription	Fetal Brain Female	brain
12	chr10:116620600-116635000	Weak transcription	Fetal Stomach	stomach
13	chr10:116621400-116634800	Weak transcription	HepG2	liver
14	chr10:116621400-116636000	Weak transcription	Right Ventricle	heart
15	chr10:116621800-116639600	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr10:116621800-116639600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr10:116622000-116639200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr10:116622200-116639000	Weak transcription	A549	lung
19	chr10:116622600-116636800	Weak transcription	Brain Germinal Matrix	brain
20	chr10:116622800-116636400	Weak transcription	Ovary	ovary
21	chr10:116623000-116634600	Weak transcription	Fetal Intestine Large	intestine
22	chr10:116623000-116634800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr10:116623800-116634600	Weak transcription	GM12878-XiMat	blood
24	chr10:116624000-116634400	Weak transcription	Fetal Thymus	thymus
25	chr10:116624400-116634600	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr10:116624400-116635000	Weak transcription	Brain Hippocampus Middle	brain
27	chr10:116624400-116636800	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr10:116624400-116639200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr10:116624600-116634600	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr10:116624600-116634600	Weak transcription	Fetal Kidney	kidney
31	chr10:116624800-116634600	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr10:116624800-116636200	Weak transcription	Placenta	Placenta
33	chr10:116624800-116636600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr10:116624800-116636600	Weak transcription	Brain Anterior Caudate	brain
35	chr10:116625200-116634600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr10:116625400-116634000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chr10:116625400-116634600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr10:116625400-116635000	Weak transcription	Fetal Lung	lung
39	chr10:116625400-116636200	Weak transcription	Liver	Liver
40	chr10:116625600-116632400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr10:116625600-116634800	Weak transcription	Adipose Nuclei	Adipose
42	chr10:116625600-116635000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr10:116626200-116634200	Weak transcription	Primary hematopoietic stem cells	blood
44	chr10:116626400-116634600	Weak transcription	Monocytes-CD14+_RO01746	blood
45	chr10:116626600-116633800	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr10:116627400-116631400	Enhancers	NHDF-Ad	bronchial
47	chr10:116627600-116634800	Weak transcription	Fetal Muscle Trunk	muscle
48	chr10:116627800-116631800	Enhancers	Osteobl	bone
49	chr10:116628000-116631400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr10:116628200-116631200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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