Variant report

Variant	rs9766863
Chromosome Location	chr6:109832034-109832035
allele	C/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	SETDB1	chr6:109831497-109832124	U2OS	brain:	n/a	n/a

Variant related genes	Relation type
AK9	TF binding region

Extended variants
information (count: 58 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10872036	0.87[EUR][1000 genomes]
rs10872037	0.86[EUR][1000 genomes]
rs10872038	0.86[EUR][1000 genomes]
rs1103996	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap]
rs11153186	0.80[EUR][1000 genomes]
rs11153196	0.95[CEU][hapmap];0.82[EUR][1000 genomes]
rs1115978	0.82[EUR][1000 genomes]
rs12175588	0.95[CEU][hapmap];0.81[EUR][1000 genomes]
rs12191099	0.83[EUR][1000 genomes]
rs12194431	0.95[CEU][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12209401	0.80[EUR][1000 genomes]
rs1321206	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1321208	0.89[CEU][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1322815	0.86[CEU][hapmap];0.86[GIH][hapmap];0.82[MEX][hapmap];0.81[TSI][hapmap]
rs1406955	0.95[CEU][hapmap]
rs17070673	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1853030	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2025149	0.95[CEU][hapmap]
rs2145145	0.95[CEU][hapmap]
rs2884037	0.81[JPT][hapmap]
rs2884063	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3823234	0.95[CEU][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap]
rs4945834	0.82[EUR][1000 genomes]
rs4946985	0.83[EUR][1000 genomes]
rs4946990	0.82[EUR][1000 genomes]
rs4947005	0.95[CEU][hapmap]
rs4947007	0.95[CEU][hapmap]
rs4947013	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4947014	0.95[CEU][hapmap];0.91[GIH][hapmap];0.94[TSI][hapmap]
rs6906729	0.94[CEU][hapmap]
rs6915268	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7757895	0.95[CEU][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.83[EUR][1000 genomes]
rs7759120	0.95[CEU][hapmap]
rs829811	0.95[CEU][hapmap];0.91[GIH][hapmap];0.97[TSI][hapmap]
rs865503	0.95[CEU][hapmap]
rs9320293	0.80[EUR][1000 genomes]
rs9320301	0.82[EUR][1000 genomes]
rs9372223	0.95[CEU][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap]
rs9374104	0.83[EUR][1000 genomes]
rs9374105	0.82[EUR][1000 genomes]
rs9374111	0.95[CEU][hapmap];0.91[GIH][hapmap];0.82[MEX][hapmap];0.97[TSI][hapmap]
rs9384712	0.95[CEU][hapmap];0.83[EUR][1000 genomes]
rs9384719	0.95[CEU][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap]
rs9386809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9386811	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9386815	0.82[EUR][1000 genomes]
rs9386819	0.95[CEU][hapmap];0.82[EUR][1000 genomes]
rs9386822	0.95[CEU][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap]
rs9386828	0.95[CEU][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap]
rs9386829	0.95[CEU][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap]
rs9398210	0.95[CEU][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap]
rs9400292	0.83[EUR][1000 genomes]
rs9400298	0.83[EUR][1000 genomes]
rs9400302	0.82[EUR][1000 genomes]
rs9480972	0.80[EUR][1000 genomes]
rs9480980	0.95[CEU][hapmap];0.82[EUR][1000 genomes]
rs9487132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487161	0.82[CEU][hapmap];0.82[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9766863	GTF3C6	cis	cerebellum	SCAN
rs9766863	RFPL4B	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109815800-109837200	Weak transcription	Primary B cells from cord blood	blood
2	chr6:109823400-109834600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:109825000-109837000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr6:109825200-109834600	Weak transcription	HSMMtube	muscle
5	chr6:109829200-109834600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr6:109829800-109833400	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
7	chr6:109829800-109834600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr6:109830400-109833800	Weak transcription	Osteobl	bone
9	chr6:109831800-109834800	Weak transcription	Placenta	Placenta
10	chr6:109832000-109832600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:109832000-109836400	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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