Variant report

Variant	rs9419763
Chromosome Location	chr10:94788965-94788966
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 87 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs10509649	0.85[AMR][1000 genomes]
rs10748590	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882124	0.92[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap]
rs11187206	1.00[MEX][hapmap];0.84[TSI][hapmap]
rs11187231	0.81[AMR][1000 genomes]
rs11187232	0.81[AMR][1000 genomes]
rs11187235	0.81[AMR][1000 genomes]
rs11187243	0.89[AMR][1000 genomes]
rs11187247	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[MEX][hapmap];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11187252	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11187257	0.87[AMR][1000 genomes]
rs11187258	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11187259	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11187260	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187263	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11187264	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11187265	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1222605	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12263200	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12354891	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12358168	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1238178	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12413378	0.85[AMR][1000 genomes]
rs12416051	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1339820	1.00[ASW][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];0.92[MEX][hapmap];0.82[MKK][hapmap];0.85[TSI][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1475366	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17108036	0.83[AMR][1000 genomes]
rs17108042	0.85[AMR][1000 genomes]
rs17108043	0.85[AMR][1000 genomes]
rs17108050	0.85[AMR][1000 genomes]
rs1750741	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2478233	0.95[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2478238	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2486682	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2486683	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2486686	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2486687	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35630863	0.89[ASN][1000 genomes]
rs4581378	0.89[ASN][1000 genomes]
rs4917898	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4919044	0.85[AMR][1000 genomes]
rs4919592	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs55661575	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs55853605	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs55856996	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56024810	0.81[AMR][1000 genomes]
rs58993699	0.89[ASN][1000 genomes]
rs59539045	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61568973	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61863079	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61863080	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61863087	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7073161	0.81[TSI][hapmap]
rs73317384	0.89[ASN][1000 genomes]
rs73319304	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73319347	0.89[ASN][1000 genomes]
rs73319398	0.89[ASN][1000 genomes]
rs7895700	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7918909	0.92[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap]
rs835256	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835257	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835258	0.89[ASN][1000 genomes]
rs835260	0.89[ASN][1000 genomes]
rs835261	0.89[ASN][1000 genomes]
rs835262	0.89[ASN][1000 genomes]
rs835263	0.89[ASN][1000 genomes]
rs835265	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835269	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835270	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835271	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835274	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835275	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835277	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835279	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs835280	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs844341	0.89[ASN][1000 genomes]
rs860669	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9419761	0.89[ASN][1000 genomes]
rs9419765	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9419766	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9420603	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9420607	0.89[ASN][1000 genomes]
rs9420608	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9420610	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895898	chr10:94628274-94810665	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv522103	chr10:94660133-94810665	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv551942	chr10:94695617-94810665	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9419763	CYP26C1	cis	cerebellum	SCAN
rs9419763	FLJ37201	cis	cerebellum	SCAN

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94713200-94819400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr10:94750000-94790200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr10:94750800-94794600	Weak transcription	Small Intestine	intestine
4	chr10:94762200-94791400	Weak transcription	Placenta	Placenta
5	chr10:94766200-94790000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr10:94772600-94791800	Weak transcription	Duodenum Mucosa	Duodenum
7	chr10:94773400-94800000	Weak transcription	Lung	lung
8	chr10:94775200-94791400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr10:94775400-94812800	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr10:94779800-94789800	Weak transcription	Ovary	ovary
11	chr10:94780600-94801400	Weak transcription	Brain Anterior Caudate	brain
12	chr10:94781400-94807600	Weak transcription	Psoas Muscle	Psoas
13	chr10:94783000-94790000	Weak transcription	Rectal Smooth Muscle	rectum
14	chr10:94783200-94789000	Weak transcription	Fetal Thymus	thymus
15	chr10:94783200-94793400	Weak transcription	Fetal Heart	heart
16	chr10:94783200-94794000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr10:94783400-94791800	Weak transcription	Liver	Liver
18	chr10:94783400-94802800	Weak transcription	Stomach Smooth Muscle	stomach
19	chr10:94785200-94819000	Weak transcription	Thymus	Thymus
20	chr10:94786000-94790000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr10:94786200-94793200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr10:94786200-94799200	Weak transcription	Primary B cells from peripheral blood	blood
23	chr10:94786400-94792000	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr10:94786400-94809200	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr10:94787000-94792400	Weak transcription	Fetal Intestine Large	intestine
26	chr10:94787200-94817600	Weak transcription	Dnd41	blood
27	chr10:94787400-94789800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr10:94787400-94799400	Weak transcription	Primary T cells from cord blood	blood
29	chr10:94787600-94799400	Weak transcription	Primary monocytes fromperipheralblood	blood
30	chr10:94787800-94791000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr10:94787800-94792600	Weak transcription	Brain Germinal Matrix	brain
32	chr10:94787800-94793000	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr10:94787800-94799200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr10:94787800-94802000	Weak transcription	Primary B cells from cord blood	blood
35	chr10:94787800-94814000	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr10:94788000-94792600	Weak transcription	Fetal Intestine Small	intestine
37	chr10:94788000-94793000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr10:94788000-94799400	Weak transcription	Primary hematopoietic stem cells	blood
39	chr10:94788000-94819000	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr10:94788000-94819400	Weak transcription	Left Ventricle	heart
41	chr10:94788200-94790000	Weak transcription	HUVEC	blood vessel
42	chr10:94788200-94791000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr10:94788200-94792000	Weak transcription	Fetal Muscle Trunk	muscle
44	chr10:94788200-94799200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr10:94788400-94791200	Enhancers	Muscle Satellite Cultured Cells	--
46	chr10:94788400-94803400	Weak transcription	Monocytes-CD14+_RO01746	blood
47	chr10:94788400-94811000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr10:94788400-94815800	Weak transcription	Fetal Muscle Leg	muscle
49	chr10:94788600-94789000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr10:94788600-94789000	Enhancers	HMEC	breast

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