Variant report

Variant	rs9827472
Chromosome Location	chr3:56726646-56726647
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:56715854..56718511-chr3:56721135..56727135,8	MCF-7	breast:
2	chr3:56715900..56719627-chr3:56722769..56727051,5	MCF-7	breast:
3	chr3:56726200..56728005-chr3:56842796..56845095,2	MCF-7	breast:
4	chr3:56716408..56719347-chr3:56726422..56729753,3	K562	blood:

Variant related genes	Relation type
ENSG00000163946	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10212341	0.86[ASN][1000 genomes]
rs11714608	0.86[ASN][1000 genomes]
rs11714897	0.86[ASN][1000 genomes]
rs11719656	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12488218	0.85[AMR][1000 genomes]
rs12493637	0.81[EUR][1000 genomes]
rs13097288	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2029465	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35998149	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs57800049	0.84[ASN][1000 genomes]
rs6445805	0.86[ASN][1000 genomes]
rs6445806	0.86[ASN][1000 genomes]
rs66529035	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7432897	0.80[EUR][1000 genomes]
rs7618024	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9827472	CCDC66	cis	Thyroid	GTEx

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56717800-56726800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr3:56718000-56727000	Weak transcription	Primary hematopoietic stem cells	blood
3	chr3:56718000-56727400	Weak transcription	HSMMtube	muscle
4	chr3:56718400-56727000	Weak transcription	HSMM	muscle
5	chr3:56722400-56727000	Weak transcription	Primary B cells from cord blood	blood
6	chr3:56722600-56726800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr3:56723600-56727000	Weak transcription	GM12878-XiMat	blood
8	chr3:56725200-56726800	Enhancers	Dnd41	blood
9	chr3:56725600-56726800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr3:56725800-56734000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr3:56726000-56727800	Weak transcription	Placenta	Placenta
12	chr3:56726000-56734000	Weak transcription	NHEK	skin
13	chr3:56726200-56729200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr3:56726400-56729800	Enhancers	Fetal Thymus	thymus
15	chr3:56726600-56726800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr3:56726600-56726800	Enhancers	Primary T helper cells PMA-I stimulated	--
17	chr3:56726600-56726800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
18	chr3:56726600-56726800	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr3:56726600-56726800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
20	chr3:56726600-56726800	Enhancers	Primary T killer memory cells from peripheral blood	blood
21	chr3:56726600-56727000	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr3:56726600-56727200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
23	chr3:56726600-56729600	Enhancers	Primary B cells from peripheral blood	blood
24	chr3:56726600-56730000	Enhancers	Primary monocytes fromperipheralblood	blood

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