Variant report

Variant	rs6782474
Chromosome Location	chr3:69055290-69055291
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:69055263-69055316	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr3:69054170-69056307	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr3:69055182-69055866	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69040706..69043178-chr3:69053791..69055898,2	K562	blood:
2	chr3:69054377..69058490-chr3:69061330..69064610,5	MCF-7	breast:

Variant related genes	Relation type
EOGT	TF binding region
ENSG00000163378	Chromatin interaction
ENSG00000244513	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10865642	0.81[ASN][1000 genomes]
rs11128107	0.89[CEU][hapmap];0.80[CHB][hapmap];0.89[TSI][hapmap]
rs13063094	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13072064	0.84[TSI][hapmap]
rs13090606	0.86[CHB][hapmap];0.89[GIH][hapmap];0.92[TSI][hapmap]
rs13099820	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2009602	0.89[CEU][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];0.92[GIH][hapmap];0.91[JPT][hapmap];0.95[TSI][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2271118	0.86[GIH][hapmap];0.86[TSI][hapmap];0.80[EUR][1000 genomes]
rs2271120	0.81[EUR][1000 genomes]
rs2271122	0.83[CEU][hapmap];0.93[CHB][hapmap];0.90[CHD][hapmap];0.94[GIH][hapmap];0.95[JPT][hapmap];0.86[MKK][hapmap];0.97[TSI][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2279936	0.86[GIH][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes]
rs2292199	0.86[CHB][hapmap];0.86[GIH][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes]
rs35718539	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3755717	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3772979	0.89[CEU][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];0.86[MKK][hapmap];0.95[TSI][hapmap];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3821562	0.89[CEU][hapmap];0.93[CHB][hapmap];0.91[JPT][hapmap];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3853157	0.89[CEU][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];0.92[GIH][hapmap];0.91[JPT][hapmap];0.92[TSI][hapmap];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56156415	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58950441	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6549162	0.82[EUR][1000 genomes]
rs6549165	0.83[CEU][hapmap];0.80[CHB][hapmap];0.89[TSI][hapmap]
rs6549169	0.81[ASN][1000 genomes]
rs6549181	0.89[CEU][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];0.92[GIH][hapmap];0.91[JPT][hapmap];0.84[MKK][hapmap];0.95[TSI][hapmap];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6775065	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6777032	0.89[CEU][hapmap];0.93[CHB][hapmap];0.91[JPT][hapmap];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6787569	0.83[MKK][hapmap]
rs6804833	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs714300	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7611878	0.89[CEU][hapmap];0.80[CHB][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]
rs7615341	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9813514	0.83[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9826616	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9857898	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6782474	MEX3B	trans	cerebellum	SCAN

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69019600-69061800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:69021400-69061600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr3:69023800-69057000	Strong transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:69024200-69057800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr3:69024800-69061600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr3:69024800-69061800	Weak transcription	Primary B cells from peripheral blood	blood
7	chr3:69025200-69058000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr3:69025200-69062000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr3:69025400-69057800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr3:69028200-69061400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr3:69030400-69061400	Weak transcription	Stomach Mucosa	stomach
12	chr3:69036200-69061200	Weak transcription	Fetal Thymus	thymus
13	chr3:69036200-69061400	Weak transcription	A549	lung
14	chr3:69036400-69061600	Weak transcription	Fetal Kidney	kidney
15	chr3:69037000-69061400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr3:69037000-69061600	Weak transcription	GM12878-XiMat	blood
17	chr3:69037000-69062000	Weak transcription	Primary T cells from cord blood	blood
18	chr3:69037000-69062200	Weak transcription	Small Intestine	intestine
19	chr3:69037600-69062000	Weak transcription	Primary B cells from cord blood	blood
20	chr3:69039600-69056400	Strong transcription	HUVEC	blood vessel
21	chr3:69039600-69056800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr3:69039800-69057600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr3:69040000-69057200	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr3:69040600-69060400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:69042400-69062000	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr3:69042600-69058000	Strong transcription	Adipose Nuclei	Adipose
27	chr3:69044400-69057600	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr3:69044800-69058000	Weak transcription	HepG2	liver
29	chr3:69045200-69058800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr3:69045600-69055800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr3:69046000-69055400	Weak transcription	Fetal Intestine Small	intestine
32	chr3:69046400-69058000	Weak transcription	Right Atrium	heart
33	chr3:69046400-69058200	Weak transcription	Fetal Heart	heart
34	chr3:69046600-69055600	Weak transcription	Fetal Intestine Large	intestine
35	chr3:69046600-69061600	Weak transcription	K562	blood
36	chr3:69046800-69057800	Weak transcription	Esophagus	oesophagus
37	chr3:69047000-69055600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr3:69047000-69057800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr3:69047000-69061400	Weak transcription	Spleen	Spleen
40	chr3:69047200-69058000	Weak transcription	Colonic Mucosa	Colon
41	chr3:69047200-69058000	Weak transcription	Rectal Smooth Muscle	rectum
42	chr3:69047600-69057400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr3:69048400-69058000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr3:69048800-69059400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr3:69049000-69058000	Weak transcription	Brain Cingulate Gyrus	brain
46	chr3:69049200-69058000	Weak transcription	Brain Angular Gyrus	brain
47	chr3:69049800-69059000	Strong transcription	Placenta	Placenta
48	chr3:69050000-69058000	Strong transcription	Skeletal Muscle Female	skeletal muscle
49	chr3:69050400-69058000	Strong transcription	Muscle Satellite Cultured Cells	--
50	chr3:69050400-69058000	Strong transcription	HSMM	muscle

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