Variant report

Variant	nsv523942
Chromosome Location	chr1:98595853-98605413
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SNX7-5	chr1:98596970-98597419	NONHSAT004742
2	lnc-SNX7-5	chr1:98596254-98596350	NONHSAT004742

Extended variants
information (count: 245 )
Associated
traits (count: 101 )

Variant overlapped rSNPs/rCNVs (count:245 , 50 per page) page: 1 2 3 4 5

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs1487302	chr1:98595853-98595854	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
2	rs577657565	chr1:98595894-98595895	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs189332396	chr1:98595941-98595942	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs560217020	chr1:98595954-98595955	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs529320002	chr1:98595999-98596000	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs543221754	chr1:98596013-98596014	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs562974801	chr1:98596071-98596072	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs531929209	chr1:98596140-98596141	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
9	rs551826448	chr1:98596147-98596148	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
10	rs139924591	chr1:98596148-98596149	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs527284820	chr1:98596150-98596151	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs547386288	chr1:98596175-98596176	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
13	rs143327011	chr1:98596208-98596209	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
14	rs551745001	chr1:98596213-98596214	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs535994237	chr1:98596245-98596246	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
16	rs534906977	chr1:98596331-98596332	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
17	rs556204293	chr1:98596337-98596338	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
18	rs571237752	chr1:98596345-98596346	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
19	rs116818286	chr1:98596347-98596348	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
20	rs558439746	chr1:98596394-98596395	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs78126705	chr1:98596406-98596407	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs536885485	chr1:98596428-98596429	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs540254116	chr1:98596431-98596432	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs35695412	chr1:98596464-98596465	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs573962024	chr1:98596504-98596505	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs192706398	chr1:98596506-98596507	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs146592143	chr1:98596515-98596516	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs184118202	chr1:98596525-98596526	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
29	rs545536247	chr1:98596548-98596549	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs565597841	chr1:98596559-98596560	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs527953001	chr1:98596725-98596726	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs548092708	chr1:98596729-98596730	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
33	rs560893376	chr1:98596772-98596773	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs355357	chr1:98596776-98596777	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
35	rs576504053	chr1:98596779-98596780	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs111839797	chr1:98596811-98596812	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs549653581	chr1:98596887-98596888	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs189507963	chr1:98596935-98596936	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs139768809	chr1:98596973-98596974	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
40	rs371084901	chr1:98596980-98596981	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
41	rs551926900	chr1:98597006-98597007	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
42	rs181821823	chr1:98597077-98597078	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
43	rs186180151	chr1:98597081-98597082	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
44	rs188987053	chr1:98597138-98597139	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
45	rs573990571	chr1:98597178-98597179	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
46	rs355356	chr1:98597182-98597183	Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
47	rs375812071	chr1:98597204-98597205	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
48	rs78922311	chr1:98597264-98597265	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
49	rs4950096	chr1:98597309-98597310	Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
50	rs545630166	chr1:98597349-98597350	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a

Variant related diseases (count:101)

Disease	PMID	Source
Wilms tumour	21544195	CNVD
Coronary Disease	20032323	CNVD
Prostate cancer	21965145	CNVD
Glioblastoma multiforme	21080181	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Stargardt''s disease	17277736	CNVD
Neuroblastoma	17897457	CNVD
Uveal melanoma	21693616	CNVD
Cancer	21637783	CNVD
Colorectal cancer	20709793	CNVD
Ewing''s sarcoma	21437220	CNVD
Neuroblastoma	21484798	CNVD
Non-syndromic sensorineural hearing loss	22290220	CNVD
Liposarcoma	21253554	CNVD
Breast cancer	21264507	CNVD
Acute myeloid leukemia	16864856	CNVD
Astrocytoma	17387387	CNVD
Cancer	21499728	CNVD
Glioblastoma multiforme	17387387	CNVD
Oligodendroglial tumors	17285580	CNVD
Papillary thyroid carcinoma	21436994	CNVD
Neuroblastoma	17535989	CNVD
Pheochromocytoma	17535989	CNVD
Prostate cancer	16705090	CNVD
Astrocytoma	17934521	CNVD
Colorectal cancer	19359472	CNVD
Neuroblastoma	18664255	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Multiple myeloma	17077331	CNVD
Gastrointestinal stromal cancer	19259404	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Gastrointestinal stromal cancer	17535989	CNVD
Neuroblastoma	17533364	CNVD
Paraganglioma	17535989	CNVD
Pulmonary chondroma	17535989	CNVD
Myofibroblastic sarcoma	19369631	CNVD
Breast cancer	17603634	CNVD
Esophageal squamous carcinoma	21637470	CNVD
HIV/AIDS	22032296	CNVD
Schizophrenia	19415332	CNVD
Non-syndromic sensorineural hearing loss	21030649	CNVD
Thoracic aortic aneurysm	21092924	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Autism	22495311	CNVD
Non-small cell lung cancer	21385341	CNVD
Gastrointestinal stromal cancer	16982739	CNVD
Chordoma	21602918	CNVD
Acute lymphoblastic leukemia	17443227	CNVD
Melanoma	18172304	CNVD
Multiple myeloma	16461302	CNVD
Cancer	21129771	CNVD
Autosomal dominant nocturnal frontal lobe epilepsy	18472482	CNVD
Hirschsprung''s Disease	21712996	CNVD
Non-small cell lung cancer	20864512	CNVD
Non-syndromic sensorineural hearing loss	15273396	CNVD
Thrombocytopenia-absent radius syndrome	21933853	CNVD
Psychiatric disorder	22848183	CNVD
Diffuse large b-cell lymphoma	18287131	CNVD
Hepatocellular carcinoma	16750200	CNVD
Burkitt''s lymphoma	18698080	CNVD
Breast cancer	20409316	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Lung cancer	18438408	CNVD
Splenic marginal zone lymphoma	21957467	CNVD
Breast cancer	17393978	CNVD
Medulloblastoma	21979893	CNVD
Cervical cancer	21062161	CNVD
Cancer	21183584	CNVD
Breast cancer	21785460	CNVD
Breast cancer	21364760	CNVD
Rett syndrome	21593744	CNVD
Prostate cancer	16573809	CNVD
Breast cancer	16608533	CNVD
Ovarian cancer	21720365	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Intellectual disability	22102821	CNVD
Cancer	20164919	CNVD
Ewing''s sarcoma	17952124	CNVD
Cancer	22429812	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Breast cancer	17133270	CNVD
Malignant mesothelioma	18160781	CNVD
Pleural malignant mesothelioma	18160781	CNVD
Pancreatic endocrine tumor	17639061	CNVD
Esophageal adenocarcinoma	18820669	CNVD
small cell lung cancer	20016488	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Glioblastoma multiforme	21922591	CNVD
Autism	17483303	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
Myelofibrosis	22110671	CNVD
Malignant fibrous histiocytomas	21085701	CNVD
Intestinal disease	21956041	CNVD
Carcinoma ex pleomorphic adenoma	18828159	CNVD
Gastric cancer	16891809	CNVD
Schizophrenia	17879154	CNVD
Mental retardation	17124404	CNVD
Intestinal disease	17828263	CNVD
lymphocytic leukemia	21291569	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Non-syndromic sensorineural hearing loss	22037309	CNVD

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:98585200-98598200	Weak transcription	Fetal Brain Male	brain
2	chr1:98597600-98598400	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr1:98597800-98599200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr1:98598200-98599000	Enhancers	Liver	Liver
5	chr1:98598200-98599400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr1:98598200-98599400	Enhancers	HSMMtube	muscle
7	chr1:98598200-98599600	Enhancers	Fetal Brain Male	brain
8	chr1:98598200-98599600	Enhancers	Fetal Heart	heart
9	chr1:98598400-98598800	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr1:98598400-98599200	Enhancers	Muscle Satellite Cultured Cells	--
11	chr1:98598400-98599400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr1:98598400-98599600	Enhancers	NHDF-Ad	bronchial
13	chr1:98598600-98599200	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr1:98598600-98599200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr1:98598600-98599200	Enhancers	Adipose Nuclei	Adipose
16	chr1:98598600-98599200	Enhancers	Brain Hippocampus Middle	brain
17	chr1:98598600-98599400	Enhancers	Brain Substantia Nigra	brain
18	chr1:98598600-98599400	Enhancers	Osteobl	bone
19	chr1:98598800-98599600	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr1:98599400-98601000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr1:98599400-98601000	Weak transcription	Osteobl	bone
22	chr1:98599800-98600200	Weak transcription	NHDF-Ad	bronchial
23	chr1:98601000-98601200	Enhancers	Muscle Satellite Cultured Cells	--
24	chr1:98601000-98601400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr1:98601000-98601400	Enhancers	Osteobl	bone
26	chr1:98601200-98601400	Enhancers	NHDF-Ad	bronchial
27	chr1:98601400-98603000	Weak transcription	Osteobl	bone
28	chr1:98603000-98603200	Enhancers	Osteobl	bone

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