Variant report

Variant	rs3732509
Chromosome Location	chr3:56784848-56784849
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:56782398..56785543-chr3:56785588..56787979,3	K562	blood:

Extended variants
information (count: 4 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs2171855	0.87[MEX][hapmap]
rs4435603	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6792241	0.87[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.93[MKK][hapmap];0.89[TSI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9851432	0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.91[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3732509	RFT1	cis	parietal	SCAN
rs3732509	ARF4	cis	parietal	SCAN

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56757000-56786400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:56757600-56792200	Weak transcription	Hela-S3	cervix
3	chr3:56758600-56792200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:56759800-56790400	Strong transcription	Dnd41	blood
5	chr3:56760800-56788800	Strong transcription	Fetal Thymus	thymus
6	chr3:56762000-56788400	Weak transcription	Colonic Mucosa	Colon
7	chr3:56763800-56789000	Weak transcription	Small Intestine	intestine
8	chr3:56763800-56790200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr3:56763800-56792800	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr3:56764000-56786600	Weak transcription	Aorta	Aorta
11	chr3:56764000-56788800	Weak transcription	Fetal Heart	heart
12	chr3:56764000-56789000	Weak transcription	Psoas Muscle	Psoas
13	chr3:56764000-56793400	Weak transcription	Gastric	stomach
14	chr3:56764000-56815800	Weak transcription	Fetal Intestine Small	intestine
15	chr3:56766200-56788200	Weak transcription	Duodenum Mucosa	Duodenum
16	chr3:56766600-56785800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr3:56767400-56792600	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:56768400-56797600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr3:56769000-56785200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr3:56770800-56787200	Strong transcription	Primary T cells from cord blood	blood
21	chr3:56774400-56785000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr3:56774600-56787400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr3:56775000-56792600	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr3:56775400-56785400	Strong transcription	Primary B cells from peripheral blood	blood
25	chr3:56775800-56788800	Strong transcription	Thymus	Thymus
26	chr3:56777200-56787400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr3:56777400-56788400	Strong transcription	Fetal Muscle Trunk	muscle
28	chr3:56778200-56785200	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr3:56778400-56786400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr3:56778600-56785400	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr3:56778800-56785200	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr3:56779000-56792600	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr3:56779200-56785400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr3:56779600-56786200	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr3:56779600-56788400	Weak transcription	Rectal Smooth Muscle	rectum
36	chr3:56779600-56789200	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr3:56779800-56788400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr3:56779800-56788400	Weak transcription	Ovary	ovary
39	chr3:56779800-56788800	Weak transcription	Esophagus	oesophagus
40	chr3:56779800-56789000	Weak transcription	Right Ventricle	heart
41	chr3:56780000-56787800	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr3:56781200-56787600	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr3:56781600-56792200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr3:56781600-56795200	Weak transcription	Brain Germinal Matrix	brain
45	chr3:56781800-56785200	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr3:56781800-56785800	ZNF genes & repeats	GM12878-XiMat	blood
47	chr3:56781800-56787600	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr3:56782000-56788800	Weak transcription	Stomach Smooth Muscle	stomach
49	chr3:56782000-56788800	Weak transcription	Spleen	Spleen
50	chr3:56782200-56795200	Weak transcription	Lung	lung

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