Variant report

Variant	esv3376323
Chromosome Location	chr9:2540959-2541257
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-VLDLR-1	chr9:2541097-2541214	XLOC_007267

Variant related genes	Relation type
CCNE2	miRNA target sites

Extended variants
information (count: 20 )
Associated
traits (count: 102 )

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs139775562	chr9:2540972-2540973	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
2	rs633757	chr9:2540980-2540981	Weak transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
3	rs829970	chr9:2541018-2541019	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
4	rs555052691	chr9:2541052-2541053	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs9695842	chr9:2541083-2541084	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
6	rs9695107	chr9:2541088-2541089	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
7	rs559137422	chr9:2541097-2541098	Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
8	rs532119283	chr9:2541109-2541110	Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
9	rs185731646	chr9:2541121-2541122	Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
10	rs386731721	chr9:2541127-2541128	Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
11	rs829972	chr9:2541139-2541140	Enhancers Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
12	rs145198217	chr9:2541159-2541160	Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
13	rs147187356	chr9:2541173-2541174	Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
14	rs536648332	chr9:2541183-2541184	Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
15	rs140543803	chr9:2541205-2541206	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
16	rs199826173	chr9:2541230-2541231	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
17	rs398113152	chr9:2541234-2541235	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
18	rs77194606	chr9:2541237-2541238	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
19	rs199898559	chr9:2541240-2541241	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs7852063	chr9:2541242-2541243	Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:102)

Disease	PMID	Source
Gastric cancer	16715143	CNVD
Glioblastoma multiforme	22286061	CNVD
Esophageal squamous carcinoma	18405350	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Intracranial aneurysm	16715129	CNVD
Primary mediastinal b-cell lymphoma	17728785	CNVD
Disorders of sex development	22290220	CNVD
Glioblastoma multiforme	21080181	CNVD
Sudden cardiac death	19188705	CNVD
Non-small cell lung cancer	21829676	CNVD
Acute myeloid leukemia	16864856	CNVD
Cancer	21183584	CNVD
Non-small cell lung cancer	21952639	CNVD
Disorders of sex development	21048976	CNVD
Neuroblastoma	18923191	CNVD
Intellectual disability	22102821	CNVD
abnormal development	18461090	CNVD
Honadal dysgenesis	21048976	CNVD
Medulloblastoma	21979893	CNVD
Lung cancer	16740712	CNVD
Malignant peripheral nerve sheath tumor	18522746	CNVD
Basal cell lymphoma	17170743	CNVD
Follicular lymphoma	17170743	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Breast cancer	16608533	CNVD
Hodgkin''s lymphoma	18641027	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Breast cancer	16272173	CNVD
Hepatocellular carcinoma	16750200	CNVD
Breast cancer	17133270	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Cervical cancer	21063398	CNVD
Retinoblastoma	22278416	CNVD
Splenic marginal zone lymphoma	18492102	CNVD
Melanoma	18172304	CNVD
Biliary cancer	19435499	CNVD
Gastric cancer	21586687	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Myopathy	18421352	CNVD
Neuroblastoma	18664255	CNVD
Acute lymphoblastic leukemia	18957548	CNVD
Myeloproliferative neoplasm	17564968	CNVD
Malignant meningioma	17937814	CNVD
Glioma	21971842	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Ewing''s sarcoma	21437220	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	17603634	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	19960244	CNVD
Glioblastoma multiforme	17387387	CNVD
Hepatocellular carcinoma	22174799	CNVD
Oligodendroglial tumors	17285580	CNVD
Cutaneous squamous cell carcinomas	19131950	CNVD
Small bowel adenocarcinoma	21586687	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Chordoma	18071362	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Chordoma	21602918	CNVD
Renal cell carcinoma	18592004	CNVD
Developmental delay	19490664	CNVD
Pleomorphic xanthoastrocytoma	20730472	CNVD
microdeletion syndrome	16199537	CNVD
Non-syndromic sensorineural hearing loss	21987784	CNVD
Cancer	20164919	CNVD
Chronic myeloid leukemia	21384125	CNVD
Ovarian cancer	21720365	CNVD
Non-syndromic sensorineural hearing loss	21030649	CNVD
small cell lung cancer	20016488	CNVD
Developmental delay	21147756	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Lung cancer	18438408	CNVD
Autism	20531469	CNVD
XY gonadal dysgenesis	20685758	CNVD
Urothelial carcinoma	21177765	CNVD
Oral cancer	21386901	CNVD
lymphocytic leukemia	21291569	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Myelodysplastic syndrome	21251322	CNVD
Breast cancer	21785460	CNVD
Prostate cancer	18632612	CNVD
Esophageal adenocarcinoma	19417022	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Breast cancer	21364760	CNVD
Breast cancer	21858162	CNVD
Renal cell carcinoma	21668985	CNVD
Autism	22495311	CNVD
Gastrointestinal stromal cancer	20877625	CNVD
Myelofibrosis	22110671	CNVD
Developmental delay	21373258	CNVD
T-cell acute lymphoblastic leukemia	18185524	CNVD
Malignant fibrous histiocytomas	21085701	CNVD
Hepatocellular carcinoma	18803288	CNVD
Schizophrenia	23813976	CNVD
Ovarian cancer	22355333	CNVD
Autism	20858261	CNVD
Epilepsy	20858261	CNVD
Mental retardation	20858261	CNVD

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:2503400-2541000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr9:2506600-2559200	Weak transcription	Adipose Nuclei	Adipose
3	chr9:2522200-2542600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr9:2529200-2549800	Weak transcription	Aorta	Aorta
5	chr9:2533000-2541800	Weak transcription	Brain Substantia Nigra	brain
6	chr9:2537200-2556000	Weak transcription	Left Ventricle	heart
7	chr9:2538600-2549800	Weak transcription	Ovary	ovary
8	chr9:2539600-2541200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr9:2540000-2541000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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