Variant report

Variant	esv3403702
Chromosome Location	chr13:38138002-38139000
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TRPC4-2	chr13:38138656-38139140	NONHSAT033251

Extended variants
information (count: 40 )
Associated
traits (count: 91 )

Variant overlapped rSNPs/rCNVs (count:40 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs184114612	chr13:38138048-38138049	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
2	rs545651063	chr13:38138061-38138062	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs563925973	chr13:38138143-38138144	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs564982074	chr13:38138159-38138160	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs559410694	chr13:38138188-38138189	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs144050894	chr13:38138295-38138296	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs112836968	chr13:38138312-38138313	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs55911062	chr13:38138319-38138320	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
9	rs71093693	chr13:38138321-38138322	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
10	rs201505060	chr13:38138328-38138329	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs200219820	chr13:38138330-38138331	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs560767316	chr13:38138331-38138332	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
13	rs367790219	chr13:38138332-38138333	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
14	rs56043643	chr13:38138336-38138337	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs532988138	chr13:38138354-38138355	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
16	rs200433103	chr13:38138367-38138368	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
17	rs543003295	chr13:38138387-38138388	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
18	rs367829225	chr13:38138426-38138427	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
19	rs563075469	chr13:38138437-38138438	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs188585101	chr13:38138499-38138500	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs548786297	chr13:38138508-38138509	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs565833301	chr13:38138538-38138539	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs9576303	chr13:38138550-38138551	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs551606405	chr13:38138552-38138553	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs571450058	chr13:38138561-38138562	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs537494387	chr13:38138625-38138626	Strong transcription Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs9547952	chr13:38138689-38138690	Strong transcription Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
28	rs376502893	chr13:38138695-38138696	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
29	rs201646613	chr13:38138722-38138723	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
30	rs4390468	chr13:38138730-38138731	Strong transcription Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
31	rs569884695	chr13:38138762-38138763	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
32	rs140693812	chr13:38138779-38138780	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
33	rs371274865	chr13:38138780-38138781	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
34	rs142610956	chr13:38138797-38138798	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
35	rs573338145	chr13:38138814-38138815	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
36	rs9547953	chr13:38138863-38138864	Strong transcription Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
37	rs534714924	chr13:38138952-38138953	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
38	rs116088005	chr13:38138954-38138955	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
39	rs575830562	chr13:38138968-38138969	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
40	rs144767490	chr13:38138979-38138980	Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a

Variant related diseases (count:91)

Disease	PMID	Source
Cancer	20164920	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	21080181	CNVD
HIV/AIDS	22032296	CNVD
Prostate cancer	16705090	CNVD
High-proliferative meningiomas	17937814	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Intellectual disability	22102821	CNVD
Cancer	20164919	CNVD
Autism	22495311	CNVD
Lung cancer	18438408	CNVD
Burkitt''s lymphoma	18698080	CNVD
Chordoma	21602918	CNVD
Bladder cancer	21949216	CNVD
Acute myeloid leukemia	16864856	CNVD
Cancer	21637783	CNVD
Medulloblastoma	21979893	CNVD
Chronic lymphocytic leukemia	21518781	CNVD
colon cancer	17210682	CNVD
Endometrial cancer	22040021	CNVD
Colorectal cancer	20709793	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	19960244	CNVD
Glioblastoma multiforme	17387387	CNVD
Hepatocellular carcinoma	22174799	CNVD
Ovarian cancer	20844748	CNVD
Malignant mesothelioma	18160781	CNVD
Pleural malignant mesothelioma	18160781	CNVD
Colorectal cancer	19359472	CNVD
Intracranial aneurysm	19064780	CNVD
Breast cancer	19287154	CNVD
Acute myeloid leukemia	18379011	CNVD
Human rectal carcinomas	16397240	CNVD
Olfactory neuroblastoma	18408657	CNVD
Multiple myeloma	17077331	CNVD
Ependymoma	16718352	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Colorectal cancer	16272173	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Squamous cell cancer	20885788	CNVD
Myeloproliferative neoplasm	20015882	CNVD
Thyroid cancer	19087340	CNVD
Gastrointestinal stromal cancer	16982739	CNVD
Breast cancer	16608533	CNVD
Neuroblastoma	18923191	CNVD
Ovarian cancer	22174824	CNVD
Breast cancer	17899364	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Colorectal cancer	16774939	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Breast cancer	17133270	CNVD
Myoepithelioma	18604193	CNVD
small cell lung cancer	20016488	CNVD
Hodgkin''s lymphoma	18641027	CNVD
Prostate cancer	16573809	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Acute lymphoblastic leukemia	21098271	CNVD
Trisomy	24170809	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Alveolar rhabdomyosarcoma	16790082	CNVD
Breast cancer	21785460	CNVD
Prostate cancer	18632612	CNVD
Prostate cancer	21965145	CNVD
Hirschsprung''s Disease	21712996	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Paraganglioma	21461997	CNVD
Pheochromocytoma	21461997	CNVD
Acute lymphoblastic leukemia	17690704	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
Monoclonal gammopathy of undetermined significance	19135901	CNVD
Prostate cancer	19242612	CNVD
Prostate cancer	17245344	CNVD
Colorectal cancer	21586687	CNVD
Small bowel adenocarcinoma	21586687	CNVD
Retinoblastoma	19183342	CNVD
Malignant peripheral nerve sheath tumor	18522746	CNVD
Developmental delay	21147756	CNVD
Colorectal cancer	21645411	CNVD
Myelofibrosis	22110671	CNVD
Glioblastoma multiforme	22286061	CNVD
Malignant fibrous histiocytomas	21085701	CNVD
Melanoma	18172304	CNVD
Congenital anomalies of the kidney and urinary tract	20467480	CNVD
Urothelial carcinoma	21177765	CNVD
Chronic lymphocytic leukemia	20421269	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:38133000-38138600	Weak transcription	Fetal Lung	lung
2	chr13:38133400-38154800	Weak transcription	Fetal Stomach	stomach
3	chr13:38134000-38149600	Weak transcription	Fetal Muscle Leg	muscle
4	chr13:38134000-38153800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr13:38134600-38143600	Weak transcription	Placenta	Placenta
6	chr13:38135200-38168800	Strong transcription	Osteobl	bone
7	chr13:38135600-38139200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
8	chr13:38135600-38165400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr13:38135800-38145600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr13:38137600-38141600	Weak transcription	NH-A	brain
11	chr13:38138000-38145600	Strong transcription	Muscle Satellite Cultured Cells	--
12	chr13:38138600-38140800	Strong transcription	Fetal Lung	lung
13	chr13:38139000-38171000	Weak transcription	Fetal Kidney	kidney

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