Variant report

Variant	nsv515896
Chromosome Location	chr6:86538718-86573165
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NT5E-7	chr6:86571835-86571903	NONHSAT113873
2	lnc-NT5E-7	chr6:86565538-86565836	NONHSAT113873

Extended variants
information (count: 2006 )
Associated
traits (count: 104 )

Variant overlapped rSNPs/rCNVs (count:2006 , 50 per page) page: 1 2 3 4 5 6 7 ... 41

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs9344550	chr6:86538718-86538719	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
2	rs75680652	chr6:86538779-86538780	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs558010138	chr6:86538803-86538804	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs148830038	chr6:86538810-86538811	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs143463386	chr6:86538820-86538821	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs554895224	chr6:86538828-86538829	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs573311082	chr6:86538874-86538875	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs75082299	chr6:86538903-86538904	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
9	rs184387541	chr6:86538909-86538910	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
10	rs578105616	chr6:86538911-86538912	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs545304833	chr6:86538924-86538925	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs547871447	chr6:86538987-86538988	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
13	rs146415801	chr6:86539031-86539032	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
14	rs536202721	chr6:86539043-86539044	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs543349117	chr6:86539044-86539045	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
16	rs553007345	chr6:86539046-86539047	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
17	rs189241527	chr6:86539072-86539073	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
18	rs141475624	chr6:86539075-86539076	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
19	rs565263639	chr6:86539091-86539092	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs547841491	chr6:86539092-86539093	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs566258059	chr6:86539094-86539095	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs1173682	chr6:86539104-86539105	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs1173681	chr6:86539111-86539112	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs1173680	chr6:86539137-86539138	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs1173679	chr6:86539161-86539162	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs551333165	chr6:86539167-86539168	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs181919815	chr6:86539174-86539175	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs1185750	chr6:86539200-86539201	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
29	rs533547031	chr6:86539218-86539219	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs548878455	chr6:86539220-86539221	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs566892245	chr6:86539247-86539248	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs537469083	chr6:86539250-86539251	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
33	rs10944145	chr6:86539265-86539266	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
34	rs577707800	chr6:86539281-86539282	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs200186309	chr6:86539289-86539290	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs554362660	chr6:86539310-86539311	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs572689883	chr6:86539339-86539340	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs570003954	chr6:86539340-86539341	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs561591933	chr6:86539347-86539348	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
40	rs576484046	chr6:86539348-86539349	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs543488141	chr6:86539353-86539354	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs565375110	chr6:86539354-86539355	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs532452742	chr6:86539363-86539364	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs186529898	chr6:86539378-86539379	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs535708514	chr6:86539388-86539389	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs10944146	chr6:86539392-86539393	Weak transcription	n/a	n/a	Overlapped CNVs	mRNA abundance
47	rs548841317	chr6:86539453-86539454	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs567255081	chr6:86539456-86539457	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs537835862	chr6:86539461-86539462	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs568017905	chr6:86539462-86539463	Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:104)

Disease	PMID	Source
Uveal melanoma	21693616	CNVD
Glioblastoma multiforme	21080181	CNVD
Biliary cancer	19435499	CNVD
Medulloblastoma	21979893	CNVD
Malaria	21533027	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Ewing''s sarcoma	17952124	CNVD
Autism	21448237	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Lung cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Autism	22495311	CNVD
Gastric cancer	17908304	CNVD
Biliary cancer	20360734	CNVD
Breast cancer	20360734	CNVD
Coronary artery disease	20360734	CNVD
Crohn''s disease	20360734	CNVD
Hypertension	20360734	CNVD
Rheumatoid arthritis	20360734	CNVD
Type 1 diabetes	20360734	CNVD
Type 2 diabetes	20360734	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Neuroblastoma	18923191	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Breast cancer	17603634	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Systemic lupus erythematosus	17503323	CNVD
Melanoma	18172304	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Cancer	21637783	CNVD
Colorectal cancer	16272173	CNVD
Acute lymphoblastic leukemia	17443227	CNVD
T-cell lymphomas	19863542	CNVD
lymphocytic leukemia	21291569	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Follicular lymphoma	19010834	CNVD
Non-small cell lung cancer	21044232	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	19960244	CNVD
Hepatocellular carcinoma	22174799	CNVD
Phyllodes tumor	17334353	CNVD
Breast cancer	16608533	CNVD
Non-small cell lung cancer	21385341	CNVD
Prostate cancer	16705090	CNVD
Adenoid cystic carcinoma	17372589	CNVD
Ependymoma	16718352	CNVD
High-proliferative meningiomas	17937814	CNVD
Intracranial tumor	16823260	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Prostate cancer	16573809	CNVD
Breast cancer	16272173	CNVD
small cell lung cancer	20016488	CNVD
Prostate cancer	18632612	CNVD
Hodgkin''s lymphoma	18641027	CNVD
Diffuse large b-cell lymphoma	18287131	CNVD
Urothelial carcinoma	18382360	CNVD
Ovarian neoplasms	16753589	CNVD
Hepatocellular carcinoma	16750200	CNVD
Wilms tumour	21544195	CNVD
Follicular lymphoma	17699855	CNVD
Breast cancer	17133270	CNVD
Leukemia	18688285	CNVD
Prostate cancer	19242612	CNVD
Glioma	21046410	CNVD
Primary central nervous system lymphoma	21088137	CNVD
Zellweger syndrome	21572526	CNVD
Follicular lymphoma	20505157	CNVD
Congenital diaphragmatic hernia	21085971	CNVD
Malignant melanoma	18718029	CNVD
Lung adenocarcinoma	21935476	CNVD
Prostate cancer	16461572	CNVD
Mental retardation	21045960	CNVD
Obesity	21045960	CNVD
learning difficulties	21045960	CNVD
Prostate cancer	17245344	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Invasive pancreatic ductal carcinoma	16982739	CNVD
Acute lymphoblastic leukemia	17690704	CNVD
Cancer	20164920	CNVD
Burkitt''s lymphoma	20823134	CNVD
Lung cancer	18438408	CNVD
Breast cancer	21858162	CNVD
Acute lymphoblastic leukemia	18458336	CNVD
Acute lymphoblastic leukemia	17640729	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
Chondromyxoid Fibroma	20696777	CNVD
Cancer	21183584	CNVD
craniofacial dysmorphism	21918468	CNVD
Myelofibrosis	22110671	CNVD
Neurodevelopmental disorder	22521361	CNVD
abnormal development	18461090	CNVD
Myelodysplastic syndrome	18508791	CNVD
Acute lymphoblastic leukemia	21098271	CNVD
Breast cancer	21364760	CNVD
Schizophrenia	20967226	CNVD

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:86537800-86550000	Weak transcription	Ovary	ovary
2	chr6:86546800-86556800	Weak transcription	Right Atrium	heart
3	chr6:86550000-86550400	ZNF genes & repeats	Ovary	ovary
4	chr6:86551400-86552800	Enhancers	Dnd41	blood
5	chr6:86552400-86552600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
6	chr6:86552400-86552600	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:86552400-86552600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:86552400-86552600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr6:86552400-86552600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr6:86552400-86552600	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
11	chr6:86552400-86552600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
12	chr6:86552400-86552600	Flanking Bivalent TSS/Enh	Primary neutrophils fromperipheralblood	blood
13	chr6:86552400-86552600	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 2	blood
14	chr6:86552400-86552600	ZNF genes & repeats	Primary T helper naive cells from peripheral blood	blood
15	chr6:86552400-86552600	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
16	chr6:86552400-86552600	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
17	chr6:86552400-86552600	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
18	chr6:86552400-86552600	Flanking Bivalent TSS/Enh	Primary T helper 17 cells PMA-I stimulated	--
19	chr6:86552400-86552600	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
20	chr6:86552400-86552600	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
21	chr6:86552400-86552600	Flanking Bivalent TSS/Enh	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr6:86552400-86552600	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
23	chr6:86552400-86552600	ZNF genes & repeats	Primary T killer memory cells from peripheral blood	blood
24	chr6:86552400-86552600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:86552400-86552600	ZNF genes & repeats	Liver	Liver
26	chr6:86552400-86552600	ZNF genes & repeats	Brain Angular Gyrus	brain
27	chr6:86552400-86552600	ZNF genes & repeats	Brain Anterior Caudate	brain
28	chr6:86552400-86552600	ZNF genes & repeats	Brain Hippocampus Middle	brain
29	chr6:86552400-86552600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
30	chr6:86552400-86552600	ZNF genes & repeats	Brain Dorsolateral Prefrontal Cortex	brain
31	chr6:86552400-86552600	ZNF genes & repeats	Brain Substantia Nigra	brain
32	chr6:86552400-86552600	ZNF genes & repeats	Colon Smooth Muscle	Colon
33	chr6:86552400-86552600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
34	chr6:86552400-86552600	Enhancers	Fetal Heart	heart
35	chr6:86552400-86552600	ZNF genes & repeats	Stomach Mucosa	stomach
36	chr6:86552400-86552600	Flanking Bivalent TSS/Enh	NH-A	brain
37	chr6:86556800-86557000	ZNF genes & repeats	Right Atrium	heart
38	chr6:86562800-86564200	Enhancers	Ovary	ovary
39	chr6:86563000-86563200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr6:86563200-86577800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr6:86563400-86567000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr6:86563800-86564000	ZNF genes & repeats	Pancreas	Pancrea
43	chr6:86564000-86566400	Weak transcription	Pancreas	Pancrea
44	chr6:86564200-86565200	Weak transcription	Ovary	ovary
45	chr6:86565000-86565400	Enhancers	HUES64 Cell Line	embryonic stem cell
46	chr6:86565200-86565400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr6:86565200-86566800	Enhancers	Ovary	ovary
48	chr6:86566400-86566600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr6:86566400-86566600	Enhancers	Pancreas	Pancrea
50	chr6:86566600-86573400	Weak transcription	Pancreas	Pancrea

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