Variant report

Variant	rs4682008
Chromosome Location	chr3:56726729-56726730
allele	G/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: 54 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1054092	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1054093	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11130542	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11719707	0.80[EUR][1000 genomes]
rs11719726	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1316647	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13317989	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1565378	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1873256	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4681726	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4681736	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4681738	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4681739	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4681955	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4682001	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4682002	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55742226	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs55828519	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56028632	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56172256	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62251234	0.83[EUR][1000 genomes]
rs6445811	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6445812	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6767903	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6794450	0.83[EUR][1000 genomes]
rs72624856	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7612464	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7620896	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7633478	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7641898	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7645941	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7647095	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7648297	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7649872	0.82[EUR][1000 genomes]
rs873840	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9311609	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9311612	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs953540	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9809117	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9809741	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9814014	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9816100	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9816265	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9819952	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9830377	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9834239	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9835134	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9847362	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9861577	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9864701	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9867302	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9871265	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9872059	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9883842	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4682008	CCDC66	Cis_1M	lymphoblastoid	RTeQTL
rs4682008	CCDC66	cis	Whole Blood	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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