Variant report

Variant	rs12493637
Chromosome Location	chr3:56730308-56730309
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	chr3:56716242..56719053-chr3:56730273..56732259,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163946	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1045926	0.81[ASN][1000 genomes]
rs10865999	0.81[ASN][1000 genomes]
rs10866000	0.88[ASN][1000 genomes]
rs11130536	0.84[ASN][1000 genomes]
rs11130538	0.87[ASN][1000 genomes]
rs11712256	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11712278	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11715395	0.86[ASN][1000 genomes]
rs11719656	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11921326	0.84[ASN][1000 genomes]
rs12488218	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12490749	0.84[ASN][1000 genomes]
rs13094666	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13097288	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1565374	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1602190	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17216740	0.86[ASN][1000 genomes]
rs2004199	0.81[ASN][1000 genomes]
rs2029464	0.84[ASN][1000 genomes]
rs2029465	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2291499	0.84[ASN][1000 genomes]
rs2291501	0.81[ASN][1000 genomes]
rs2317133	0.81[ASN][1000 genomes]
rs2317245	0.84[ASN][1000 genomes]
rs35998149	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3732512	0.84[ASN][1000 genomes]
rs4681746	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4681963	0.84[ASN][1000 genomes]
rs6445807	0.80[EUR][1000 genomes]
rs66529035	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6774323	0.84[ASN][1000 genomes]
rs6802051	0.84[ASN][1000 genomes]
rs7432897	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7612599	0.81[ASN][1000 genomes]
rs7618024	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7629559	0.81[ASN][1000 genomes]
rs9820759	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9827472	0.81[EUR][1000 genomes]
rs9840528	0.88[ASN][1000 genomes]
rs9841915	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9845096	0.86[ASN][1000 genomes]
rs9845655	0.86[ASN][1000 genomes]
rs9858728	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9881154	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12493637	CCDC66	cis	Thyroid	GTEx

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56725800-56734000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:56726000-56734000	Weak transcription	NHEK	skin
3	chr3:56727600-56730400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
4	chr3:56727600-56731000	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr3:56727600-56731200	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr3:56727600-56731200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr3:56727800-56731000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr3:56727800-56731200	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr3:56728000-56730400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr3:56728000-56733000	Weak transcription	Placenta	Placenta
11	chr3:56728200-56731000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr3:56729200-56731000	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr3:56729200-56731200	Enhancers	Primary T cells from cord blood	blood
14	chr3:56729200-56731200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:56729600-56730600	Weak transcription	Primary hematopoietic stem cells	blood
16	chr3:56729600-56730600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr3:56729600-56730600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr3:56729600-56730800	Weak transcription	Primary B cells from cord blood	blood
19	chr3:56729600-56730800	Weak transcription	Primary B cells from peripheral blood	blood
20	chr3:56729600-56730800	Weak transcription	GM12878-XiMat	blood
21	chr3:56729800-56731000	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr3:56729800-56738600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr3:56730000-56730400	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr3:56730000-56730400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:56730000-56733000	Weak transcription	Primary monocytes fromperipheralblood	blood
26	chr3:56730000-56738600	Weak transcription	Monocytes-CD14+_RO01746	blood

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