Variant report

Variant	rs3801124
Chromosome Location	chr7:38905055-38905056
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	chr7:38902352..38905123-chr7:38929723..38931780,2	MCF-7	breast:
2	chr7:38900726..38902861-chr7:38904557..38906481,2	MCF-7	breast:

Extended variants
information (count: 120 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:119)

rs_ID	r²[population]
rs10085898	0.86[ASN][1000 genomes]
rs1019065	0.98[ASN][1000 genomes]
rs10229531	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10244302	0.98[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10244901	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10245322	1.00[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10245333	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10249090	0.86[ASN][1000 genomes]
rs10250120	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10251632	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10266910	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10269756	0.98[ASN][1000 genomes]
rs10272658	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10274968	0.81[CEU][hapmap];0.90[ASN][1000 genomes]
rs10279181	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10279990	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10280140	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10281823	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10951576	0.86[ASN][1000 genomes]
rs10951578	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11772408	1.00[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11980197	0.98[ASN][1000 genomes]
rs11980627	0.81[CEU][hapmap];0.96[ASN][1000 genomes]
rs11983390	0.98[ASN][1000 genomes]
rs12533017	0.86[ASN][1000 genomes]
rs12533808	0.86[ASN][1000 genomes]
rs12535711	0.96[ASN][1000 genomes]
rs12672018	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13228087	0.81[CEU][hapmap];0.96[ASN][1000 genomes]
rs1473138	0.86[ASN][1000 genomes]
rs1473139	0.83[ASN][1000 genomes]
rs17618395	0.84[ASN][1000 genomes]
rs17619021	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17680408	0.88[ASN][1000 genomes]
rs17680879	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2008199	0.92[ASN][1000 genomes]
rs2009277	0.98[ASN][1000 genomes]
rs2067683	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2072247	0.96[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2072248	0.86[ASN][1000 genomes]
rs2074853	0.87[ASN][1000 genomes]
rs2159018	1.00[YRI][hapmap];0.86[ASN][1000 genomes]
rs2189853	0.82[ASN][1000 genomes]
rs2392601	0.86[ASN][1000 genomes]
rs2392602	0.86[ASN][1000 genomes]
rs2392603	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2392604	0.83[CEU][hapmap];0.98[ASN][1000 genomes]
rs2392605	0.94[ASN][1000 genomes]
rs2392606	0.94[ASN][1000 genomes]
rs2392607	0.96[ASN][1000 genomes]
rs28369620	0.98[ASN][1000 genomes]
rs28460817	0.96[ASN][1000 genomes]
rs28552512	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2893568	0.80[ASN][1000 genomes]
rs3735346	0.96[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3779122	0.90[ASN][1000 genomes]
rs3779124	0.81[ASN][1000 genomes]
rs3779125	0.88[ASN][1000 genomes]
rs3801111	1.00[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801113	1.00[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801114	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801115	1.00[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801116	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801119	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801126	0.96[ASN][1000 genomes]
rs3801127	0.96[ASN][1000 genomes]
rs3801128	0.90[ASN][1000 genomes]
rs3801132	0.86[ASN][1000 genomes]
rs3801134	0.86[ASN][1000 genomes]
rs4623319	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4720306	0.83[ASN][1000 genomes]
rs4723791	0.84[ASN][1000 genomes]
rs4723792	0.84[ASN][1000 genomes]
rs4723795	0.86[ASN][1000 genomes]
rs4723796	0.86[ASN][1000 genomes]
rs4723800	0.86[ASN][1000 genomes]
rs56980069	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59626436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59995998	1.00[ASN][1000 genomes]
rs62443565	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62443566	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62443573	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62443575	0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62444126	0.86[ASN][1000 genomes]
rs62444137	0.90[ASN][1000 genomes]
rs62444140	0.90[ASN][1000 genomes]
rs6415270	0.84[ASN][1000 genomes]
rs6462868	0.86[ASN][1000 genomes]
rs6462869	0.86[ASN][1000 genomes]
rs6462870	0.86[ASN][1000 genomes]
rs6943746	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6945239	0.98[ASN][1000 genomes]
rs6946636	0.86[ASN][1000 genomes]
rs6948026	0.83[CEU][hapmap];0.98[ASN][1000 genomes]
rs6955677	0.81[CEU][hapmap];0.98[ASN][1000 genomes]
rs6959858	0.90[ASN][1000 genomes]
rs6960585	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6963364	0.86[ASN][1000 genomes]
rs6966738	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6968196	0.86[ASN][1000 genomes]
rs6969435	0.86[ASN][1000 genomes]
rs6973415	0.85[CEU][hapmap];0.98[ASN][1000 genomes]
rs6974795	0.98[ASN][1000 genomes]
rs73123612	0.90[ASN][1000 genomes]
rs73127433	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73131153	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7776996	0.98[ASN][1000 genomes]
rs7782927	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7788383	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7793692	0.85[CEU][hapmap];0.96[ASN][1000 genomes]
rs7798033	0.81[ASN][1000 genomes]
rs8180877	0.98[ASN][1000 genomes]
rs917320	1.00[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs917321	1.00[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs917322	0.81[CEU][hapmap];0.96[ASN][1000 genomes]
rs929422	0.86[ASN][1000 genomes]
rs9639805	0.84[ASN][1000 genomes]
rs9655397	0.90[ASN][1000 genomes]
rs982392	0.94[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	nsv887966	chr7:38835035-38933942	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3801124	CCDC32	trans	lymphoblastoid	RTeQTL

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38858800-38907600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr7:38867400-38905200	Weak transcription	Left Ventricle	heart
3	chr7:38871400-38905800	Weak transcription	Aorta	Aorta
4	chr7:38871400-38920000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr7:38871600-38906000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr7:38873000-38907600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr7:38873200-38919200	Weak transcription	Pancreas	Pancrea
8	chr7:38876400-38906200	Weak transcription	Duodenum Mucosa	Duodenum
9	chr7:38879800-38938000	Weak transcription	Right Ventricle	heart
10	chr7:38880800-38905600	Weak transcription	Fetal Muscle Leg	muscle
11	chr7:38881200-38907600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr7:38881200-38919200	Weak transcription	Psoas Muscle	Psoas
13	chr7:38883400-38907600	Weak transcription	Esophagus	oesophagus
14	chr7:38884600-38905600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr7:38886200-38947800	Weak transcription	Stomach Smooth Muscle	stomach
16	chr7:38886400-38907400	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr7:38886400-38907400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr7:38886400-38907600	Weak transcription	Rectal Smooth Muscle	rectum
19	chr7:38886600-38907200	Weak transcription	Colon Smooth Muscle	Colon
20	chr7:38887200-38906600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr7:38887200-38907400	Weak transcription	Brain Cingulate Gyrus	brain
22	chr7:38889200-38907200	Weak transcription	Ovary	ovary
23	chr7:38889400-38906800	Weak transcription	Fetal Stomach	stomach
24	chr7:38889400-38907200	Weak transcription	Lung	lung
25	chr7:38889400-38907400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr7:38889400-38909600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr7:38889400-38948200	Weak transcription	Gastric	stomach
28	chr7:38889600-38932600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr7:38893800-38925600	Weak transcription	Thymus	Thymus
30	chr7:38895200-38907200	Weak transcription	Brain Anterior Caudate	brain
31	chr7:38896000-38907600	Weak transcription	Spleen	Spleen
32	chr7:38896600-38906200	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr7:38897600-38907400	Weak transcription	Brain Angular Gyrus	brain
34	chr7:38897600-38909000	Strong transcription	Monocytes-CD14+_RO01746	blood
35	chr7:38898000-38907600	Weak transcription	HSMM	muscle
36	chr7:38898200-38905200	Weak transcription	Brain Hippocampus Middle	brain
37	chr7:38898200-38907200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr7:38898200-38909200	Weak transcription	NH-A	brain
39	chr7:38898400-38920000	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr7:38898600-38906800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr7:38898600-38907200	Weak transcription	Fetal Brain Female	brain
42	chr7:38898600-38907400	Weak transcription	HSMMtube	muscle
43	chr7:38898600-38907400	Weak transcription	Osteobl	bone
44	chr7:38898600-38907600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr7:38898600-38907600	Weak transcription	NHDF-Ad	bronchial
46	chr7:38898600-38914200	Weak transcription	NHLF	lung
47	chr7:38898600-38928800	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr7:38898800-38906000	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr7:38898800-38912200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr7:38899200-38905800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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