Variant report

Variant	rs9924953
Chromosome Location	chr16:69705121-69705122
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10517	0.81[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.82[YRI][hapmap];0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1142105	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12102305	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12921017	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs13329844	1.00[CEU][hapmap];0.91[CHB][hapmap];0.92[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13331055	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13331071	0.82[ASN][1000 genomes]
rs13331216	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13335149	0.97[ASN][1000 genomes]
rs13335664	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13338560	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs16958965	0.85[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16958997	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.94[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16959059	0.91[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2304526	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.94[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28392989	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28473508	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2917665	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2917667	0.86[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];0.84[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2917669	0.86[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];0.89[JPT][hapmap];0.85[MEX][hapmap];0.87[ASN][1000 genomes]
rs2917672	0.82[ASN][1000 genomes]
rs2917673	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2917674	0.88[ASN][1000 genomes]
rs2917675	0.85[ASN][1000 genomes]
rs2917676	0.88[ASN][1000 genomes]
rs2917681	1.00[YRI][hapmap]
rs2917682	0.86[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];0.89[JPT][hapmap];0.88[MKK][hapmap];1.00[YRI][hapmap];0.84[ASN][1000 genomes]
rs2917683	0.89[JPT][hapmap];1.00[YRI][hapmap];0.84[ASN][1000 genomes]
rs2965752	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2965753	0.86[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];0.89[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs2965757	0.82[CHB][hapmap]
rs3785075	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3826153	0.82[CHB][hapmap];0.85[CHD][hapmap]
rs3826154	1.00[ASW][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.96[LWK][hapmap];0.82[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3926183	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4247109	0.84[CHD][hapmap];0.82[MEX][hapmap];0.90[MKK][hapmap]
rs4442796	0.81[CHD][hapmap];0.86[GIH][hapmap];0.83[LWK][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap]
rs4985527	0.81[CHD][hapmap];0.82[MEX][hapmap];0.85[MKK][hapmap]
rs61628167	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6499246	0.82[ASN][1000 genomes]
rs6499249	0.86[GIH][hapmap];0.83[LWK][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap]
rs689452	0.91[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs689456	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7200420	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7359387	1.00[ASW][hapmap];0.80[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9888993	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9889219	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9921652	0.82[CHB][hapmap];0.88[CHD][hapmap];0.82[ASN][1000 genomes]
rs9924264	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9924271	0.82[CHB][hapmap];0.88[CHD][hapmap];0.84[ASN][1000 genomes]
rs9925037	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];0.94[JPT][hapmap];0.96[LWK][hapmap];0.85[MEX][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap]
rs9927809	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9934264	0.97[ASN][1000 genomes]
rs9934321	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9934681	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9936464	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];0.94[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9937018	1.00[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9938717	0.91[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap];0.89[JPT][hapmap];0.89[TSI][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9924953	ATP6V0D1	cis	cerebellum	SCAN
rs9924953	NRN1L	cis	cerebellum	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:69654200-69705600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr16:69660400-69709600	Weak transcription	Fetal Brain Male	brain
3	chr16:69667000-69727600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr16:69670800-69715400	Weak transcription	Aorta	Aorta
5	chr16:69671200-69726400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr16:69678800-69705600	Weak transcription	Stomach Mucosa	stomach
7	chr16:69681400-69705200	Weak transcription	Small Intestine	intestine
8	chr16:69681600-69705400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr16:69681600-69709000	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr16:69681600-69711200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr16:69681600-69725800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr16:69681600-69725800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr16:69685000-69724800	Weak transcription	Fetal Heart	heart
14	chr16:69688600-69725400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr16:69689800-69705200	Weak transcription	Brain Germinal Matrix	brain
16	chr16:69690000-69705600	Weak transcription	Fetal Brain Female	brain
17	chr16:69690200-69705400	Weak transcription	Gastric	stomach
18	chr16:69690200-69725800	Weak transcription	Ovary	ovary
19	chr16:69690400-69705600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr16:69690600-69705400	Weak transcription	Spleen	Spleen
21	chr16:69690800-69712400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr16:69691000-69726400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr16:69691200-69706600	Weak transcription	Colon Smooth Muscle	Colon
24	chr16:69691400-69712400	Weak transcription	Colonic Mucosa	Colon
25	chr16:69694600-69705200	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr16:69694600-69705600	Weak transcription	Stomach Smooth Muscle	stomach
27	chr16:69694800-69719200	Weak transcription	Rectal Smooth Muscle	rectum
28	chr16:69694800-69725800	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr16:69695000-69705600	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr16:69695200-69705600	Weak transcription	Brain Substantia Nigra	brain
31	chr16:69695800-69709200	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr16:69697800-69710800	Weak transcription	Lung	lung
33	chr16:69698800-69705400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr16:69698800-69705600	Weak transcription	Dnd41	blood
35	chr16:69699000-69711800	Weak transcription	Esophagus	oesophagus
36	chr16:69700400-69725400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr16:69701400-69707200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr16:69701400-69707600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr16:69701400-69707600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr16:69701400-69707800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr16:69701400-69717400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr16:69701400-69725600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr16:69701600-69706200	Strong transcription	HSMMtube	muscle
44	chr16:69701600-69706200	Strong transcription	NH-A	brain
45	chr16:69701600-69707000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr16:69701600-69707400	Strong transcription	Osteobl	bone
47	chr16:69701600-69707600	Strong transcription	HUES64 Cell Line	embryonic stem cell
48	chr16:69701600-69707800	Strong transcription	GM12878-XiMat	blood
49	chr16:69701800-69706800	Strong transcription	Primary T helper cells PMA-I stimulated	--
50	chr16:69701800-69707400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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