Variant report

Variant	rs1109156
Chromosome Location	chr3:159572120-159572121
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11916871	0.83[CEU][hapmap];0.82[CHB][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs11925758	0.83[CEU][hapmap];0.82[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs3888010	0.83[CEU][hapmap];0.82[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs55778776	0.84[ASN][1000 genomes]
rs56272715	0.84[ASN][1000 genomes]
rs57440770	0.84[ASN][1000 genomes]
rs59282676	0.92[ASN][1000 genomes]
rs73168577	0.87[ASN][1000 genomes]
rs73168579	0.87[ASN][1000 genomes]
rs9820807	0.83[CEU][hapmap];0.82[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9827940	0.83[CEU][hapmap];1.00[JPT][hapmap]
rs9831996	0.83[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9846145	0.87[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1109156	MFSD1	cis	parietal	SCAN

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159558000-159575000	Weak transcription	Gastric	stomach
2	chr3:159567600-159572200	Weak transcription	Ovary	ovary
3	chr3:159568800-159576800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr3:159569000-159573000	Enhancers	Fetal Brain Male	brain
5	chr3:159569000-159573200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:159569200-159573000	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr3:159569400-159572800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:159569600-159577800	Weak transcription	Colonic Mucosa	Colon
9	chr3:159569600-159578400	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr3:159570000-159572600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
11	chr3:159570200-159572400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr3:159570200-159572600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
13	chr3:159570200-159575200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr3:159570200-159576800	Active TSS	Right Ventricle	heart
15	chr3:159570400-159573000	Active TSS	Aorta	Aorta
16	chr3:159570400-159573200	Flanking Active TSS	HUVEC	blood vessel
17	chr3:159570600-159573400	Active TSS	Psoas Muscle	Psoas
18	chr3:159570800-159574800	Weak transcription	Thymus	Thymus
19	chr3:159570800-159576000	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr3:159570800-159578000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr3:159571000-159572200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr3:159571000-159572200	Weak transcription	Hela-S3	cervix
23	chr3:159571000-159572800	Active TSS	Duodenum Smooth Muscle	Duodenum
24	chr3:159571000-159573000	Active TSS	Left Ventricle	heart
25	chr3:159571000-159573800	Weak transcription	Lung	lung
26	chr3:159571000-159574800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr3:159571000-159577800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr3:159571200-159572200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr3:159571200-159572200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr3:159571200-159572200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr3:159571200-159572200	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr3:159571200-159572200	Active TSS	Fetal Muscle Leg	muscle
33	chr3:159571200-159572200	Weak transcription	Placenta	Placenta
34	chr3:159571200-159572200	Active TSS	Fetal Stomach	stomach
35	chr3:159571200-159572200	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr3:159571200-159572200	Enhancers	Rectal Smooth Muscle	rectum
37	chr3:159571200-159572200	Weak transcription	GM12878-XiMat	blood
38	chr3:159571200-159572400	Enhancers	Fetal Intestine Large	intestine
39	chr3:159571200-159572400	Active TSS	Skeletal Muscle Female	skeletal muscle
40	chr3:159571200-159572800	ZNF genes & repeats	Fetal Heart	heart
41	chr3:159571200-159573000	Active TSS	Fetal Muscle Trunk	muscle
42	chr3:159571200-159573200	Enhancers	HUES64 Cell Line	embryonic stem cell
43	chr3:159571200-159573200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr3:159571200-159573200	Active TSS	Stomach Smooth Muscle	stomach
45	chr3:159571200-159573400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:159571200-159573800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr3:159571200-159573800	Active TSS	Skeletal Muscle Male	skeletal muscle
48	chr3:159571200-159573800	Weak transcription	Spleen	Spleen
49	chr3:159571200-159574000	Enhancers	Brain Germinal Matrix	brain
50	chr3:159571200-159574600	Weak transcription	Fetal Thymus	thymus

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