Variant report

Variant	rs9841915
Chromosome Location	chr3:56734630-56734631
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:56715683..56718669-chr3:56731865..56734737,3	K562	blood:

Variant related genes	Relation type
ENSG00000163946	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11712256	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11712278	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11719656	0.80[ASN][1000 genomes]
rs12488218	0.80[ASN][1000 genomes]
rs12493637	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1565374	0.80[AMR][1000 genomes]
rs1602190	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2029465	0.85[ASN][1000 genomes]
rs35998149	0.85[ASN][1000 genomes]
rs4681746	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66529035	0.80[ASN][1000 genomes]
rs7432897	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7618024	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv237149	chr3:56732922-56738481	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9841915	CCDC66	cis	Thyroid	GTEx

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56729800-56738600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr3:56730000-56738600	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr3:56730400-56738600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr3:56731000-56736400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr3:56731000-56736400	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr3:56731000-56736400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr3:56731000-56736800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr3:56731000-56736800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr3:56731200-56736400	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr3:56731200-56736400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr3:56731200-56738600	Weak transcription	Primary T cells from cord blood	blood
12	chr3:56731200-56738600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr3:56731200-56738600	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr3:56733400-56738600	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr3:56734000-56734800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:56734000-56734800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr3:56734000-56734800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr3:56734000-56734800	Enhancers	HMEC	breast
19	chr3:56734000-56734800	Enhancers	NHEK	skin
20	chr3:56734200-56734800	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr3:56734200-56734800	Enhancers	HUES6 Cell Line	embryonic stem cell
22	chr3:56734200-56735000	Enhancers	Placenta Amnion	Placenta Amnion
23	chr3:56734600-56735200	Enhancers	Fetal Brain Male	brain
24	chr3:56734600-56736400	Weak transcription	Placenta	Placenta
25	chr3:56734600-56736400	Weak transcription	HepG2	liver

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