Variant report

Variant	rs3830150
Chromosome Location	chr1:172571568-172571569
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:172571108..172573486-chr1:172574030..172577529,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000094975	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10157501	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10752995	0.84[AMR][1000 genomes];0.83[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	0.94[CHB][hapmap];0.90[CHD][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap]
rs10911862	0.94[CHB][hapmap];0.90[CHD][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap]
rs10911875	0.81[ASN][1000 genomes]
rs10911920	0.87[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap];0.90[TSI][hapmap];0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10912009	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10912075	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1159378	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12021702	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12025433	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12038654	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12041837	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12070393	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12073872	0.83[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12093274	0.81[ASN][1000 genomes]
rs12120798	1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12123755	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12145007	0.81[CHB][hapmap]
rs2239816	0.94[CHB][hapmap];0.90[CHD][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap];0.82[TSI][hapmap]
rs2239817	0.93[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.82[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.90[TSI][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2285664	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2472549	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.90[MEX][hapmap];0.84[TSI][hapmap];0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs3738736	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3754426	0.94[CHB][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.80[AFR][1000 genomes];0.88[AMR][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	0.87[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];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	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7514814	0.93[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7519911	0.92[ASN][1000 genomes]
rs7532580	0.93[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.82[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];0.92[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7542003	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7553020	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9943237	0.82[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap]
rs9970543	0.92[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3830150	FMO2	cis	cerebellum	SCAN
rs3830150	FMO1	cis	parietal	SCAN

Chromatin state (count:122 , 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	chr1:172540200-172581000	Weak transcription	Colonic Mucosa	Colon
3	chr1:172557400-172581200	Weak transcription	Fetal Heart	heart
4	chr1:172557600-172574600	Weak transcription	Stomach Mucosa	stomach
5	chr1:172559000-172583400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr1:172559400-172571600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr1:172559800-172573400	Weak transcription	Fetal Brain Male	brain
8	chr1:172560000-172578400	Weak transcription	HSMMtube	muscle
9	chr1:172560000-172580600	Weak transcription	Small Intestine	intestine
10	chr1:172560000-172581200	Weak transcription	Psoas Muscle	Psoas
11	chr1:172560000-172582400	Weak transcription	Brain Substantia Nigra	brain
12	chr1:172560200-172574200	Weak transcription	HUVEC	blood vessel
13	chr1:172560200-172581800	Weak transcription	Hela-S3	cervix
14	chr1:172560400-172572800	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr1:172563600-172574400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr1:172563600-172574800	Strong transcription	Primary B cells from peripheral blood	blood
17	chr1:172563800-172581200	Strong transcription	Primary B cells from cord blood	blood
18	chr1:172563800-172582000	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr1:172564400-172581000	Strong transcription	Primary neutrophils fromperipheralblood	blood
20	chr1:172564400-172582000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr1:172564600-172579200	Weak transcription	Fetal Kidney	kidney
22	chr1:172564800-172571600	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr1:172565200-172573400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr1:172565400-172572000	Strong transcription	Fetal Lung	lung
25	chr1:172565400-172573000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr1:172565400-172574000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr1:172566000-172573600	Weak transcription	Brain Anterior Caudate	brain
28	chr1:172566000-172574800	Strong transcription	Primary T helper cells PMA-I stimulated	--
29	chr1:172566000-172581200	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr1:172566200-172575000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr1:172566400-172573200	Weak transcription	Brain Hippocampus Middle	brain
32	chr1:172566400-172573600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr1:172566400-172573800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr1:172566400-172575000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr1:172566400-172575000	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr1:172566400-172576800	Strong transcription	Primary T cells fromperipheralblood	blood
37	chr1:172566600-172572200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr1:172566600-172573200	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr1:172566600-172574000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr1:172566600-172575000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr1:172566600-172575000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr1:172566600-172581000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr1:172566600-172581000	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr1:172566600-172581200	Weak transcription	Fetal Stomach	stomach
45	chr1:172566600-172581800	Weak transcription	Esophagus	oesophagus
46	chr1:172566600-172582200	Weak transcription	Fetal Intestine Small	intestine
47	chr1:172566600-172595800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
48	chr1:172566800-172573400	Strong transcription	HUES6 Cell Line	embryonic stem cell
49	chr1:172566800-172579200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr1:172567000-172575000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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