Variant report

Variant	rs3738736
Chromosome Location	chr1:172559323-172559324
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10157501	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10752995	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10911830	0.88[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs10911833	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs10911843	0.91[CEU][hapmap];0.94[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap];0.86[TSI][hapmap]
rs10911859	0.82[AMR][1000 genomes]
rs10911862	0.91[CEU][hapmap];0.94[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes]
rs10911875	0.81[ASN][1000 genomes]
rs10911920	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10912009	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10912075	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1159378	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12021702	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12025433	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12038654	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12041837	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12070393	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12073872	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12093274	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12120798	1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12123755	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12130435	0.82[AMR][1000 genomes]
rs12145007	0.81[CHB][hapmap]
rs2239816	0.91[CEU][hapmap];0.94[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.82[AMR][1000 genomes]
rs2239817	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2285143	0.83[AMR][1000 genomes]
rs2285664	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2472549	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3754426	0.91[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs3830150	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6424955	0.88[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs6424956	0.81[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs6424965	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6679222	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs6688929	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs6691320	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs6691528	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs6699802	0.82[JPT][hapmap]
rs6702420	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs72710417	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7514814	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7519911	0.92[ASN][1000 genomes]
rs7532580	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7542003	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7553020	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9943237	0.91[CEU][hapmap];0.82[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap];0.83[TSI][hapmap]
rs9970543	0.92[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs3738736	FMO1	cis	parietal	SCAN
rs3738736	FMO2	cis	cerebellum	SCAN
rs3738736	SUCO	cis	lung	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172519400-172571600	Weak transcription	Brain Angular Gyrus	brain
2	chr1:172521800-172560400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr1:172535600-172569200	Weak transcription	Gastric	stomach
4	chr1:172536000-172565400	Weak transcription	Ovary	ovary
5	chr1:172536000-172565600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:172536000-172566000	Weak transcription	Aorta	Aorta
7	chr1:172537400-172565600	Weak transcription	Lung	lung
8	chr1:172540200-172581000	Weak transcription	Colonic Mucosa	Colon
9	chr1:172540400-172559600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr1:172540400-172565600	Weak transcription	Esophagus	oesophagus
11	chr1:172540400-172565800	Weak transcription	Pancreas	Pancrea
12	chr1:172540600-172565400	Weak transcription	Fetal Intestine Small	intestine
13	chr1:172541600-172565400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr1:172542000-172559600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr1:172548400-172565600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr1:172551400-172565200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr1:172551600-172559600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr1:172554200-172562800	Strong transcription	HUES64 Cell Line	embryonic stem cell
19	chr1:172554600-172560400	Strong transcription	Primary neutrophils fromperipheralblood	blood
20	chr1:172554600-172561400	Strong transcription	HUES48 Cell Line	embryonic stem cell
21	chr1:172554800-172560600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
22	chr1:172555000-172560600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr1:172555200-172560400	Strong transcription	Primary T helper cells PMA-I stimulated	--
24	chr1:172555400-172560600	Strong transcription	H1 Cell Line	embryonic stem cell
25	chr1:172555800-172561400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr1:172556000-172560600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
27	chr1:172556000-172565600	Weak transcription	Spleen	Spleen
28	chr1:172556400-172565400	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr1:172557000-172560000	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr1:172557000-172560400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr1:172557000-172560400	Strong transcription	Primary B cells from cord blood	blood
32	chr1:172557000-172560400	Strong transcription	Primary B cells from peripheral blood	blood
33	chr1:172557000-172560400	Strong transcription	Primary T helper cells fromperipheralblood	blood
34	chr1:172557000-172560400	Strong transcription	Dnd41	blood
35	chr1:172557000-172560600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr1:172557200-172560200	Strong transcription	HepG2	liver
37	chr1:172557200-172560400	Strong transcription	Rectal Mucosa Donor 31	rectum
38	chr1:172557200-172560600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr1:172557400-172559400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr1:172557400-172560200	Strong transcription	Primary hematopoietic stem cells	blood
41	chr1:172557400-172560400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr1:172557400-172560400	Strong transcription	Liver	Liver
43	chr1:172557400-172560400	Strong transcription	Placenta	Placenta
44	chr1:172557400-172560600	Strong transcription	Primary T cells fromperipheralblood	blood
45	chr1:172557400-172560600	Strong transcription	Fetal Intestine Large	intestine
46	chr1:172557400-172581200	Weak transcription	Fetal Heart	heart
47	chr1:172557600-172560400	Strong transcription	Fetal Thymus	thymus
48	chr1:172557600-172560600	Strong transcription	Adipose Nuclei	Adipose
49	chr1:172557600-172574600	Weak transcription	Stomach Mucosa	stomach
50	chr1:172557800-172560000	Strong transcription	Thymus	Thymus

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