Variant report

Variant	rs3804123
Chromosome Location	chr6:25576377-25576378
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25568017..25570250-chr6:25574639..25577217,2	K562	blood:
2	chr6:25571886..25573443-chr6:25575045..25577767,2	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1022492	0.83[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs10434845	0.82[ASN][1000 genomes]
rs118855	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs1206523	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs12663643	0.88[ASN][1000 genomes]
rs12665641	0.91[JPT][hapmap]
rs13192159	0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs2072848	0.87[ASN][1000 genomes]
rs2072849	0.84[CHD][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs214048	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs214053	0.83[JPT][hapmap]
rs214054	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs214056	0.82[JPT][hapmap]
rs214057	0.83[JPT][hapmap]
rs214065	0.83[JPT][hapmap]
rs368638	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs3804120	0.83[CHB][hapmap];0.84[CHD][hapmap];0.81[ASN][1000 genomes]
rs3804122	0.83[JPT][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3804124	0.83[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs3804125	0.89[ASN][1000 genomes]
rs3804126	0.83[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs3804127	0.89[ASN][1000 genomes]
rs3827505	0.84[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs431659	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs441460	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs454095	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs6935799	0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs7738571	0.84[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs7767930	0.83[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs7776417	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs9295665	0.83[CHB][hapmap];0.81[ASN][1000 genomes]
rs9348683	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs9356979	0.86[JPT][hapmap]
rs9356980	0.88[ASN][1000 genomes]
rs9356981	0.88[ASN][1000 genomes]
rs9356983	0.88[ASN][1000 genomes]
rs9366625	0.86[JPT][hapmap]
rs9379772	0.83[CHB][hapmap];0.82[CHD][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs9393648	0.86[JPT][hapmap]
rs9393649	0.85[ASN][1000 genomes]
rs9393650	0.81[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3804123	GPX6	cis	parietal	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25471600-25597200	Weak transcription	Gastric	stomach
2	chr6:25516800-25606400	Weak transcription	Lung	lung
3	chr6:25522400-25588600	Weak transcription	HMEC	breast
4	chr6:25523000-25577200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:25530800-25584200	Weak transcription	Fetal Intestine Small	intestine
6	chr6:25538600-25592800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr6:25539200-25582000	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:25540600-25580200	Weak transcription	Fetal Thymus	thymus
9	chr6:25541600-25584400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr6:25541600-25612000	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr6:25544000-25593600	Weak transcription	Fetal Lung	lung
12	chr6:25547200-25600600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:25556200-25618000	Weak transcription	Primary B cells from cord blood	blood
14	chr6:25557200-25591400	Weak transcription	Ovary	ovary
15	chr6:25564200-25582600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:25564400-25576800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:25565000-25579800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr6:25565400-25583400	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr6:25565800-25581400	Weak transcription	Fetal Intestine Large	intestine
20	chr6:25566000-25581400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr6:25566400-25581000	Weak transcription	Aorta	Aorta
22	chr6:25566400-25581600	Weak transcription	Duodenum Mucosa	Duodenum
23	chr6:25568000-25581400	Weak transcription	Primary T cells from cord blood	blood
24	chr6:25571200-25581600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr6:25572000-25622200	Weak transcription	HSMMtube	muscle
26	chr6:25574200-25594200	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr6:25575800-25580000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr6:25576200-25579000	Enhancers	Cortex derived primary cultured neurospheres	brain

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