Variant report

Variant	nsv960437
Chromosome Location	chr17:20015227-20018343
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCDC144C-3	chr17:20015137-20016303	NONHSAT146542

Extended variants
information (count: 105 )
Associated
traits (count: 151 )

Variant overlapped rSNPs/rCNVs (count:105 , 50 per page) page: 1 2 3

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs563055792	chr17:20015285-20015286	Weak transcription Enhancers Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
2	rs142331335	chr17:20015294-20015295	Weak transcription Enhancers Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
3	rs567506988	chr17:20015310-20015311	Weak transcription Enhancers Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
4	rs143972121	chr17:20015383-20015384	Weak transcription Enhancers Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
5	rs564978790	chr17:20015397-20015398	Weak transcription Enhancers Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
6	rs527662828	chr17:20015400-20015401	Weak transcription Enhancers Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
7	rs553259268	chr17:20015402-20015403	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
8	rs573091568	chr17:20015423-20015424	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
9	rs547698278	chr17:20015426-20015427	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
10	rs9902683	chr17:20015428-20015429	Weak transcription Strong transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
11	rs59699073	chr17:20015549-20015550	Weak transcription Strong transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
12	rs377631369	chr17:20015554-20015555	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
13	rs558510724	chr17:20015590-20015591	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
14	rs7216599	chr17:20015600-20015601	Weak transcription Strong transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
15	rs538788062	chr17:20015643-20015644	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
16	rs558679069	chr17:20015649-20015650	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
17	rs565716375	chr17:20015654-20015655	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
18	rs534303262	chr17:20015704-20015705	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
19	rs554513433	chr17:20015723-20015724	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
20	rs186671660	chr17:20015766-20015767	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
21	rs543256541	chr17:20015773-20015774	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
22	rs556524855	chr17:20015788-20015789	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
23	rs576219778	chr17:20015789-20015790	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
24	rs151287399	chr17:20015853-20015854	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
25	rs565016272	chr17:20015873-20015874	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
26	rs56696913	chr17:20015906-20015907	Weak transcription Strong transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
27	rs541083016	chr17:20015923-20015924	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
28	rs115672399	chr17:20015947-20015948	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
29	rs192573831	chr17:20015973-20015974	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
30	rs117800688	chr17:20015999-20016000	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
31	rs185628871	chr17:20016030-20016031	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
32	rs190736465	chr17:20016031-20016032	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
33	rs552331768	chr17:20016044-20016045	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
34	rs565793500	chr17:20016077-20016078	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
35	rs561161825	chr17:20016098-20016099	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
36	rs369169236	chr17:20016108-20016109	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
37	rs530185583	chr17:20016130-20016131	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
38	rs556447888	chr17:20016145-20016146	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
39	rs59503680	chr17:20016166-20016167	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
40	rs540423401	chr17:20016235-20016236	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
41	rs547877880	chr17:20016238-20016239	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
42	rs568043243	chr17:20016295-20016296	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
43	rs145703924	chr17:20016355-20016356	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs182024829	chr17:20016449-20016450	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs576257998	chr17:20016495-20016496	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs7503496	chr17:20016497-20016498	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs536803123	chr17:20016512-20016513	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs538868390	chr17:20016522-20016523	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs560662332	chr17:20016541-20016542	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs572218043	chr17:20016558-20016559	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:151)

Disease	PMID	Source
Wilms tumour	21544195	CNVD
Esophageal adenocarcinoma	18519675	CNVD
lymphocytic leukemia	21291569	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Melanoma	18172304	CNVD
Medulloblastoma	21979893	CNVD
Breast cancer	16608533	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Chordoma	21602918	CNVD
Miller-Dieker syndrome	22283845	CNVD
Non-syndromic sensorineural hearing loss	17457615	CNVD
Cancer	22429812	CNVD
Chronic lymphocytic leukemia	21795749	CNVD
Ewing''s sarcoma	21437220	CNVD
Follicular lymphoma	19010834	CNVD
Colorectal cancer	20709793	CNVD
Acute myeloid leukemia	16864856	CNVD
Endometrial cancer	22040021	CNVD
Paraganglioma	21461997	CNVD
Pheochromocytoma	21461997	CNVD
Breast cancer	22028636	CNVD
Breast cancer	20837533	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Hepatocellular carcinoma	22174799	CNVD
Medulloblastoma	21292688	CNVD
colon cancer	17210682	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Basal cell lymphoma	17053054	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Cancer	16751803	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Colorectal cancer	19359472	CNVD
Embryonal rhabdomyosarcoma	16790082	CNVD
Chronic lymphocytic leukemia	17971485	CNVD
Basal cell lymphoma	17170743	CNVD
Breast cancer	16461572	CNVD
Colorectal cancer	16272173	CNVD
Follicular lymphoma	17170743	CNVD
Human rectal carcinomas	16397240	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Breast cancer	17133270	CNVD
Chronic lymphocytic leukemia	18922857	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	21080181	CNVD
Ovarian cancer	22174824	CNVD
Moyamoya disease	22323933	CNVD
small cell lung cancer	20016488	CNVD
Acute myeloid leukemia	20729466	CNVD
Acute promyelocytic leukemia	19109227	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Urothelial carcinoma	21177765	CNVD
Acute myeloid leukemia	21251322	CNVD
Myelodysplastic syndrome	21251322	CNVD
Cancer	20164919	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Acute myeloid leukemia	20724749	CNVD
Non-syndromic sensorineural hearing loss	21030649	CNVD
Colorectal cancer	21645411	CNVD
HIV/AIDS	22844521	CNVD
Psoriasis	22844521	CNVD
Rheumatoid arthritis	22844521	CNVD
Sclerosis systemic	22844521	CNVD
Systemic lupus erythematosus	22844521	CNVD
HIV/AIDS	17953491	CNVD
HIV/AIDS	20877625	CNVD
Immune disease	21076436	CNVD
Rheumatoid arthritis	17953491	CNVD
Type 1 diabetes	17953491	CNVD
HIV/AIDS	15637236	CNVD
Prostate cancer	18632612	CNVD
Lung cancer	18438408	CNVD
Ovarian cancer	21781307	CNVD
Autism	22495311	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Lung cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
Neurofibromatosis	18196300	CNVD
Colorectal cancer	16774939	CNVD
Breast cancer	17001317	CNVD
Rhabdomyosarcoma	16790082	CNVD
Charcot-marie-tooth disease	16463004	CNVD
Osteosarcoma	22292074	CNVD
Breast cancer	17603634	CNVD
Charcot	16760730	CNVD
Mental retardation	17901693	CNVD
Malignant fibrous histiocytomas	21085701	CNVD
ovarian endometriomas	16273235	CNVD
Smith-Magenis syndrome	18923513	CNVD
Invasive pancreatic ductal carcinoma	16982739	CNVD
Myelofibrosis	22110671	CNVD
Breast cancer	16272173	CNVD
Austim spectrum disorder	21302340	CNVD
Autism	22492990	CNVD
Congenital abnormalities	21549014	CNVD
Developmental delay	18414209	CNVD
Developmental delay	21549014	CNVD
Epilepsy	20970697	CNVD
Mental retardation	18414209	CNVD
Mental retardation	21549014	CNVD
Smith-Magenis syndrome	21981782	CNVD
Smith-Magenis syndrome	20188345	CNVD
Smith-Magenis syndrome	16775514	CNVD
Smith-Magenis syndrome	22585170	CNVD
Smith-Magenis syndrome	22241247	CNVD
Autism	20970697	CNVD
Mental retardation	19951919	CNVD
Potocki-Lupski syndrome	21271655	CNVD
Potocki-lupski syndrome	17357070	CNVD
Potocki-lupski syndrome	20110824	CNVD
Potocki-lupski syndrome	18923514	CNVD
Potocki-lupski syndrome	22241247	CNVD
Potocki-lupski syndrome	20188345	CNVD
Schizophrenia	21399695	CNVD
Mental retardation	16773131	CNVD
Adenocarcinoma	19607727	CNVD
Squamous cell cancer	19607727	CNVD
Non-small cell lung cancer	21829676	CNVD
Glioblastoma multiforme	17002787	CNVD
Charcot-marie-tooth disease	22470819	CNVD
Neurofibromatosis	22470819	CNVD
Neuropathy	22470819	CNVD
Smith-Magenis syndrome	18301319	CNVD
Smith-Magenis syndrome	17357070	CNVD
Smith-Magenis syndrome	18469339	CNVD
Smith-Magenis syndrome	22241097	CNVD
Smith-Magenis syndrome	22470819	CNVD
Tourette syndrome	18923514	CNVD
Type 1 diabetes	22470819	CNVD
Potocki-lupski syndrome	18469339	CNVD
Follicular lymphoma	20505157	CNVD
T-cell lymphomas	19863542	CNVD
Neuropathy	17597781	CNVD
Hepatocellular carcinoma	16750200	CNVD
Neurodevelopmental disorder	17015230	CNVD
Smith-Magenis syndrome	17597781	CNVD
Potocki-lupski syndrome	18059269	CNVD
Potocki-lupski syndrome	17597781	CNVD
Mental retardation	17847001	CNVD
Multiple myeloma	16616336	CNVD
Breast cancer	20409316	CNVD
Autism	22543975	CNVD
Breast cancer	22522925	CNVD
Pancreatic cancer	17952125	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:19999000-20032800	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr17:20002200-20018800	Weak transcription	Spleen	Spleen
3	chr17:20002200-20033400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr17:20007400-20024200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr17:20007600-20019800	Weak transcription	Brain Cingulate Gyrus	brain
6	chr17:20007600-20020200	Weak transcription	Brain Angular Gyrus	brain
7	chr17:20007600-20024000	Weak transcription	Brain Substantia Nigra	brain
8	chr17:20007800-20017800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr17:20007800-20020200	Weak transcription	Brain Anterior Caudate	brain
10	chr17:20007800-20024000	Weak transcription	Brain Hippocampus Middle	brain
11	chr17:20009200-20024200	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr17:20010800-20017200	Weak transcription	Primary T cells from cord blood	blood
13	chr17:20011800-20019200	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr17:20012000-20018400	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr17:20012600-20019800	Weak transcription	A549	lung
16	chr17:20013400-20016000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr17:20013600-20016400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr17:20014400-20019800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr17:20014400-20020000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr17:20014400-20024200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr17:20014400-20024400	Weak transcription	Ovary	ovary
22	chr17:20014400-20024800	Weak transcription	Aorta	Aorta
23	chr17:20014400-20025200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr17:20014600-20028800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr17:20015000-20015400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
26	chr17:20015000-20016400	Strong transcription	Adipose Nuclei	Adipose
27	chr17:20015200-20016200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr17:20015200-20017800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr17:20016000-20028800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr17:20016200-20016600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr17:20016400-20024400	Weak transcription	Adipose Nuclei	Adipose
32	chr17:20016400-20028600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr17:20016600-20017400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr17:20017400-20026200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr17:20017800-20018000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr17:20017800-20018200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr17:20017800-20018200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr17:20017800-20018200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr17:20017800-20018200	Enhancers	NHDF-Ad	bronchial
40	chr17:20018200-20020000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr17:20018200-20025200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links