Variant report

Variant	esv3498592
Chromosome Location	chr3:100520937-100523510
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:100520717..100523501-chr7:140980485..140982614,2	MCF-7	breast:

Extended variants
information (count: 79 )
Associated
traits (count: 56 )

Variant overlapped rSNPs/rCNVs (count:79 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs9827896	chr3:100521017-100521018	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
2	rs144189935	chr3:100521023-100521024	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
3	rs555828458	chr3:100521045-100521046	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
4	rs551529258	chr3:100521069-100521070	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
5	rs146552939	chr3:100521093-100521094	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
6	rs534257876	chr3:100521108-100521109	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
7	rs77184614	chr3:100521145-100521146	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
8	rs554036157	chr3:100521148-100521149	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
9	rs538405915	chr3:100521152-100521153	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
10	rs374145401	chr3:100521185-100521186	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
11	rs181352682	chr3:100521206-100521207	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
12	rs545881583	chr3:100521272-100521273	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
13	rs2317206	chr3:100521283-100521284	Weak transcription Strong transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
14	rs535426635	chr3:100521313-100521314	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
15	rs572782575	chr3:100521326-100521327	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
16	rs184894140	chr3:100521363-100521364	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
17	rs79695953	chr3:100521387-100521388	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
18	rs529070634	chr3:100521404-100521405	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs374873776	chr3:100521437-100521438	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
20	rs375446167	chr3:100521441-100521442	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
21	rs10511186	chr3:100521497-100521498	Weak transcription Strong transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
22	rs533302206	chr3:100521534-100521535	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
23	rs374673111	chr3:100521600-100521601	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
24	rs369009882	chr3:100521601-100521602	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
25	rs398091678	chr3:100521602-100521603	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
26	rs551835860	chr3:100521609-100521610	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
27	rs575101874	chr3:100521703-100521704	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
28	rs557414469	chr3:100521727-100521728	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
29	rs567451181	chr3:100521799-100521800	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs188202907	chr3:100521802-100521803	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
31	rs72930702	chr3:100521862-100521863	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs549713181	chr3:100521874-100521875	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
33	rs34178484	chr3:100521892-100521893	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
34	rs567916884	chr3:100521931-100521932	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
35	rs538442936	chr3:100521933-100521934	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
36	rs373427334	chr3:100522028-100522029	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs149800303	chr3:100522042-100522043	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs181976940	chr3:100522080-100522081	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs539193577	chr3:100522115-100522116	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
40	rs572629995	chr3:100522145-100522146	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs76475742	chr3:100522179-100522180	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs572773797	chr3:100522195-100522196	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs539810400	chr3:100522196-100522197	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs145787297	chr3:100522256-100522257	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs573555014	chr3:100522262-100522263	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs148979388	chr3:100522323-100522324	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs562573591	chr3:100522426-100522427	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs79036406	chr3:100522436-100522437	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs143784132	chr3:100522453-100522454	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs147740216	chr3:100522520-100522521	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:56)

Disease	PMID	Source
Medulloblastoma	21979893	CNVD
Basal cell lymphoma	17053054	CNVD
Esophageal cancer	21851588	CNVD
Uveal melanoma	21693616	CNVD
Glioblastoma multiforme	21080181	CNVD
Retinoblastoma	21504564	CNVD
Renal cell carcinoma	21668985	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Intellectual disability	22102821	CNVD
Breast cancer	17603634	CNVD
Uveal melanoma	20484589	CNVD
Autism	22495311	CNVD
Lung cancer	18438408	CNVD
Hirschsprung''s Disease	21712996	CNVD
Hepatocellular carcinoma	16750200	CNVD
Cancer	21183584	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Bipolar disorder	20877625	CNVD
Bipolar disorder	21956041	CNVD
Bipolar disorder	22241247	CNVD
Biliary cancer	18923514	CNVD
Prostate cancer	21965145	CNVD
Cancer	21129771	CNVD
Congenital diaphragmatic hernia	21085971	CNVD
Cervical cancer	21062161	CNVD
Squamous cell cancer	20885788	CNVD
Melanoma	18172304	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Bipolar disorder	18458673	CNVD
Breast cancer	22032731	CNVD
Neurodevelopmental disorder	22521361	CNVD
head and neck squamous cell carcinoma	17671120	CNVD
Breast cancer	16461572	CNVD
Neuroblastoma	17533364	CNVD
microdeletion syndrome	22180640	CNVD
Cervical Cancer	21857958	CNVD
Melanoma	21693616	CNVD
Lung cancer	21426551	CNVD
Cancer	21637783	CNVD
Cervical cancer	21063398	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Liposarcoma	21253554	CNVD
Oral cancer	21386901	CNVD
Renal cell carcinoma	19461508	CNVD
Cancer	22065749	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
small cell lung cancer	20016488	CNVD
Ductal carcinoma	22052326	CNVD
Myelofibrosis	22110671	CNVD
T-cell acute lymphoblastic leukemia	19406988	CNVD
Breast cancer	16608533	CNVD
Breast cancer	21785460	CNVD
Non-syndromic sensorineural hearing loss	21987784	CNVD

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100494800-100523400	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr3:100502400-100530400	Weak transcription	Colon Smooth Muscle	Colon
3	chr3:100505200-100558200	Weak transcription	Ovary	ovary
4	chr3:100505200-100582800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr3:100506000-100548400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr3:100513600-100523000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:100514200-100547600	Weak transcription	Fetal Muscle Leg	muscle
8	chr3:100514400-100529000	Weak transcription	HSMMtube	muscle
9	chr3:100515400-100521800	Enhancers	NHDF-Ad	bronchial
10	chr3:100515600-100522600	Weak transcription	Osteobl	bone
11	chr3:100516000-100523000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:100516000-100572200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:100517400-100523400	Weak transcription	HSMM	muscle
14	chr3:100517400-100594400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr3:100518800-100543000	Weak transcription	Fetal Stomach	stomach
16	chr3:100519000-100523400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr3:100519600-100523600	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr3:100519600-100530600	Weak transcription	Left Ventricle	heart
19	chr3:100521600-100522800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr3:100521800-100522000	Genic enhancers	NHDF-Ad	bronchial
21	chr3:100522000-100522400	Weak transcription	NHDF-Ad	bronchial
22	chr3:100522400-100525200	Strong transcription	NHDF-Ad	bronchial
23	chr3:100522600-100528400	Strong transcription	Osteobl	bone
24	chr3:100522800-100523800	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr3:100523000-100524000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:100523000-100524400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr3:100523400-100523800	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr3:100523400-100524200	Strong transcription	Skeletal Muscle Female	skeletal muscle
29	chr3:100523400-100524200	ZNF genes & repeats	HSMM	muscle

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