Variant report

Variant	rs3732746
Chromosome Location	chr3:146230714-146230715
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:146230433..146232969-chr3:146233230..146235979,3	K562	blood:
2	chr3:146227701..146229351-chr3:146229643..146232362,2	K562	blood:
3	chr3:146219517..146222555-chr3:146227614..146231140,3	K562	blood:
4	chr3:146227090..146229108-chr3:146230078..146231702,2	MCF-7	breast:
5	chr3:146228241..146231154-chr3:146236988..146238533,2	K562	blood:

Variant related genes	Relation type
ENSG00000188313	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11716510	0.84[EUR][1000 genomes]
rs11916950	0.83[EUR][1000 genomes]
rs13065970	0.86[EUR][1000 genomes]
rs1720242	0.81[CEU][hapmap]
rs2120384	0.85[CEU][hapmap];0.84[TSI][hapmap]
rs35296568	0.81[CEU][hapmap]
rs487578	0.81[CEU][hapmap]
rs491900	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs498201	0.84[EUR][1000 genomes]
rs500995	0.82[EUR][1000 genomes]
rs512259	0.84[EUR][1000 genomes]
rs512845	0.84[EUR][1000 genomes]
rs514287	0.83[EUR][1000 genomes]
rs523849	0.81[CEU][hapmap]
rs524720	0.81[CEU][hapmap]
rs536474	0.84[EUR][1000 genomes]
rs536737	0.80[CEU][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes]
rs563385	0.81[CEU][hapmap]
rs568302	0.85[CEU][hapmap]
rs575834	0.81[CEU][hapmap]
rs577842	0.81[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448053	chr3:146186791-146262066	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	esv3523751	chr3:146186838-146261806	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	esv3523753	chr3:146186838-146261806	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv2496437	chr3:146186902-146262961	Enhancers Active TSS Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3732746	GPR87	cis	cerebellum	SCAN

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:146214200-146235400	Weak transcription	Right Atrium	heart
2	chr3:146216000-146232800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:146218400-146232200	Weak transcription	Aorta	Aorta
4	chr3:146222200-146231600	Weak transcription	Esophagus	oesophagus
5	chr3:146222800-146231200	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr3:146222800-146237200	Weak transcription	GM12878-XiMat	blood
7	chr3:146224200-146246400	Weak transcription	Colon Smooth Muscle	Colon
8	chr3:146224600-146241000	Weak transcription	Fetal Kidney	kidney
9	chr3:146224800-146231400	Weak transcription	Primary hematopoietic stem cells	blood
10	chr3:146224800-146254400	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr3:146225000-146240800	Weak transcription	Small Intestine	intestine
12	chr3:146225400-146230800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr3:146225400-146230800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:146225400-146231400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:146225400-146231400	Weak transcription	NHLF	lung
16	chr3:146225400-146240600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:146225400-146255000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr3:146225400-146256600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:146225400-146257000	Weak transcription	Right Ventricle	heart
20	chr3:146225400-146260800	Weak transcription	NH-A	brain
21	chr3:146225600-146230800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr3:146225600-146230800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr3:146225600-146231400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr3:146225600-146231400	Weak transcription	Adipose Nuclei	Adipose
25	chr3:146225600-146231400	Weak transcription	HMEC	breast
26	chr3:146225600-146231400	Weak transcription	NHDF-Ad	bronchial
27	chr3:146225600-146231400	Weak transcription	Osteobl	bone
28	chr3:146225600-146231600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr3:146225600-146231600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr3:146225600-146232200	Weak transcription	Colonic Mucosa	Colon
31	chr3:146225600-146232200	Weak transcription	Placenta	Placenta
32	chr3:146225600-146232400	Weak transcription	HSMM	muscle
33	chr3:146225600-146240400	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr3:146225600-146252200	Weak transcription	Psoas Muscle	Psoas
35	chr3:146225600-146258600	Weak transcription	Brain Hippocampus Middle	brain
36	chr3:146226000-146231400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr3:146226000-146231400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr3:146226000-146231600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr3:146226000-146231800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr3:146226000-146241400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:146226200-146231400	Weak transcription	NHEK	skin
42	chr3:146226200-146232200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr3:146226200-146232200	Weak transcription	HUVEC	blood vessel
44	chr3:146226200-146232600	Weak transcription	Hela-S3	cervix
45	chr3:146226200-146240800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr3:146226200-146245800	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr3:146226400-146231400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr3:146226400-146235400	Weak transcription	K562	blood
49	chr3:146228000-146230800	Enhancers	Fetal Intestine Large	intestine
50	chr3:146228000-146230800	Enhancers	Stomach Mucosa	stomach

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