Variant report

Variant	rs72624856
Chromosome Location	chr3:56724937-56724938
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	chr3:56715854..56718511-chr3:56721135..56727135,8	MCF-7	breast:
2	chr3:56715900..56719627-chr3:56722769..56727051,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163946	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 1 )

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	0.88[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	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4681739	0.98[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]
rs4682008	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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]
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:1)

SNP	Gene	Cis/trans	Tissue	Source
rs72624856	CCDC66	cis	Whole Blood	GTEx

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56717600-56725200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:56717600-56725200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr3:56717800-56725200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr3:56717800-56725200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:56717800-56726800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:56718000-56725200	Weak transcription	Dnd41	blood
7	chr3:56718000-56725200	Weak transcription	HMEC	breast
8	chr3:56718000-56727000	Weak transcription	Primary hematopoietic stem cells	blood
9	chr3:56718000-56727400	Weak transcription	HSMMtube	muscle
10	chr3:56718200-56725000	Weak transcription	Placenta	Placenta
11	chr3:56718400-56727000	Weak transcription	HSMM	muscle
12	chr3:56718800-56726600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr3:56719000-56725800	Weak transcription	Fetal Thymus	thymus
14	chr3:56722400-56726600	Weak transcription	Primary B cells from peripheral blood	blood
15	chr3:56722400-56727000	Weak transcription	Primary B cells from cord blood	blood
16	chr3:56722600-56725200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr3:56722600-56726800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr3:56722800-56725200	Weak transcription	NHEK	skin
19	chr3:56723600-56727000	Weak transcription	GM12878-XiMat	blood

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