Variant report

Variant	rs3826404
Chromosome Location	chr17:34097039-34097040
allele	G/T
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	CTCF	chr17:34096940-34097090	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr17:34093517..34095983-chr17:34096987..34099575,2	MCF-7	breast:
2	chr17:34091596..34094138-chr17:34096970..34098893,2	K562	blood:
3	chr17:34092617..34094138-chr17:34096970..34099054,2	K562	blood:

Variant related genes	Relation type
MMP28	TF binding region
ENSG00000129270	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 6 )

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

rs_ID	r²[population]
rs1994182	1.00[CEU][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes]
rs2107538	0.83[CEU][hapmap];0.80[CHB][hapmap];0.85[TSI][hapmap]
rs2251660	0.89[TSI][hapmap]
rs2291299	0.83[CEU][hapmap];0.80[CHB][hapmap];0.93[TSI][hapmap]
rs2526327	0.89[TSI][hapmap]
rs2735475	0.89[TSI][hapmap]
rs35517765	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4251702	0.82[MEX][hapmap]
rs4251703	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs4251724	0.89[CEU][hapmap]
rs4795087	1.00[CHB][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4795089	0.82[MEX][hapmap]
rs4795090	0.91[CEU][hapmap];0.85[GIH][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs4796105	0.82[ASW][hapmap];0.91[CEU][hapmap];0.93[GIH][hapmap];0.89[MEX][hapmap];0.86[MKK][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4796107	0.82[MEX][hapmap]
rs4796128	0.83[CEU][hapmap];0.93[TSI][hapmap]
rs4796138	0.89[TSI][hapmap]
rs55858632	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6505496	0.83[CEU][hapmap];0.85[GIH][hapmap];0.93[TSI][hapmap];0.86[EUR][1000 genomes]
rs6505498	0.86[EUR][1000 genomes]
rs9754	0.89[TSI][hapmap]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs3826404	ADAP2	cis	parietal	SCAN
rs3826404	CCL5	cis	lymphoblastoid	seeQTL
rs3826404	C17orf50	cis	cerebellum	SCAN
rs3826404	AMAC1	cis	cerebellum	SCAN
rs3826404	TAF15	Cis_1M	lymphoblastoid	RTeQTL
rs3826404	RDM1	cis	lymphoblastoid	seeQTL

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34091800-34099400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr17:34091800-34101800	Weak transcription	Aorta	Aorta
3	chr17:34091800-34103600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr17:34092000-34099400	Weak transcription	Right Ventricle	heart
5	chr17:34092000-34100000	Weak transcription	Right Atrium	heart
6	chr17:34092000-34100400	Weak transcription	Lung	lung
7	chr17:34092000-34100800	Weak transcription	Fetal Brain Female	brain
8	chr17:34092000-34101800	Weak transcription	HMEC	breast
9	chr17:34092200-34100200	Weak transcription	Colon Smooth Muscle	Colon
10	chr17:34092400-34097600	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr17:34092400-34100400	Weak transcription	Stomach Mucosa	stomach
12	chr17:34092400-34101000	Weak transcription	Brain Substantia Nigra	brain
13	chr17:34092400-34101200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr17:34092400-34114200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr17:34092600-34100800	Weak transcription	Colonic Mucosa	Colon
16	chr17:34093000-34097600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr17:34093200-34098800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr17:34093200-34100000	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr17:34093200-34100600	Weak transcription	Fetal Intestine Large	intestine
20	chr17:34093400-34098800	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr17:34093400-34098800	Weak transcription	Primary hematopoietic stem cells	blood
22	chr17:34093400-34100200	Weak transcription	Brain Germinal Matrix	brain
23	chr17:34093800-34098800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr17:34093800-34100600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr17:34094000-34099000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr17:34094000-34100000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr17:34094000-34100600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr17:34094400-34098800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr17:34094400-34099600	Weak transcription	Adipose Nuclei	Adipose
30	chr17:34094600-34099000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr17:34094800-34100800	Weak transcription	Hela-S3	cervix
32	chr17:34096600-34097800	Weak transcription	Duodenum Mucosa	Duodenum
33	chr17:34096600-34100600	Weak transcription	Fetal Intestine Small	intestine
34	chr17:34097000-34097400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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