Variant report

Variant	rs903319
Chromosome Location	chr1:220985811-220985812
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10495152	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10863567	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10863568	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11118609	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11118611	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11118615	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11118616	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11118619	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11590678	0.85[ASN][1000 genomes]
rs12057411	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12073837	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12089958	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12117818	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12124030	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12129004	0.94[CEU][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12139139	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12141189	0.80[CEU][hapmap]
rs12145674	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1335919	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1494368	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1494371	0.92[EUR][1000 genomes]
rs1494372	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17008806	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.81[MEX][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17596850	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17597773	0.80[CEU][hapmap]
rs17650107	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2242358	0.95[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap]
rs2279638	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2378425	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2642421	0.95[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap]
rs35730037	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4143773	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61830270	0.90[ASN][1000 genomes]
rs61830289	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6541161	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6668666	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6673877	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6693017	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs7530074	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7530176	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7530493	0.93[ASN][1000 genomes]
rs7544735	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7553447	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs881995	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs984676	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs903319	BPNT1	cis	parietal	SCAN

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:220966400-220996000	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr1:220971200-220986400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr1:220971200-220991400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr1:220972800-220987600	Weak transcription	Fetal Brain Male	brain
5	chr1:220973200-220991800	Weak transcription	Brain Anterior Caudate	brain
6	chr1:220973400-221000200	Weak transcription	Placenta	Placenta
7	chr1:220974000-220992800	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr1:220974200-220986800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr1:220974200-220991200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr1:220975200-220992000	Weak transcription	Brain Germinal Matrix	brain
11	chr1:220975600-220988000	Weak transcription	Brain Angular Gyrus	brain
12	chr1:220975600-220991400	Weak transcription	Brain Cingulate Gyrus	brain
13	chr1:220976400-220988000	Weak transcription	Spleen	Spleen
14	chr1:220978400-220991200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr1:220979400-220989400	Strong transcription	Primary neutrophils fromperipheralblood	blood
16	chr1:220980400-221001400	Weak transcription	Gastric	stomach
17	chr1:220980600-220986600	Weak transcription	Fetal Brain Female	brain
18	chr1:220981000-220987600	Strong transcription	Hela-S3	cervix
19	chr1:220981400-220991600	Strong transcription	Fetal Intestine Small	intestine
20	chr1:220982400-220987200	Weak transcription	Brain Substantia Nigra	brain
21	chr1:220984000-220989400	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr1:220984000-220991600	Weak transcription	Small Intestine	intestine
23	chr1:220984000-220992200	Weak transcription	Esophagus	oesophagus
24	chr1:220984000-220997400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr1:220984000-220999800	Weak transcription	Colonic Mucosa	Colon
26	chr1:220984200-220986400	Weak transcription	Pancreas	Pancrea
27	chr1:220984200-220986600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr1:220984200-220987600	Strong transcription	HepG2	liver
29	chr1:220984200-220988400	Weak transcription	Fetal Lung	lung
30	chr1:220984200-220989400	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr1:220984200-220990400	Strong transcription	Adipose Nuclei	Adipose
32	chr1:220984200-220991400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr1:220984200-220991400	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr1:220984200-220991400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr1:220984200-220991600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr1:220984200-220991600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr1:220984200-220991800	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr1:220984200-220992000	Weak transcription	Fetal Muscle Trunk	muscle
39	chr1:220984200-220992200	Weak transcription	Lung	lung
40	chr1:220984200-220992400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
41	chr1:220984200-220993400	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr1:220984200-221001400	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr1:220984400-220987400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
44	chr1:220984600-220989600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr1:220984600-220999600	Weak transcription	Left Ventricle	heart
46	chr1:220984600-221006600	Weak transcription	Psoas Muscle	Psoas
47	chr1:220984800-220988800	Weak transcription	Fetal Heart	heart
48	chr1:220984800-220991600	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr1:220984800-220993000	Weak transcription	Right Ventricle	heart
50	chr1:220985000-220988600	Strong transcription	Fetal Intestine Large	intestine

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