Variant report

Variant	nsv615029
Chromosome Location	chr9:105077400-105135055
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:14)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:1 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:106538363..106538863-chr9:105123307..105123875,2	MCF-7	breast:

(count:14 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GRIN3A-3	chr9:105127094-105127133	ucscGeneNc_uc004bbt_2
2	lnc-GRIN3A-3	chr9:105079433-105079602	NONHSAT133764
3	lnc-GRIN3A-3	chr9:105078134-105078251	ucscGeneNc_uc004bbt_2
4	lnc-GRIN3A-3	chr9:105127094-105127137	NONHSAT133756
5	lnc-GRIN3A-3	chr9:105117245-105117384	NONHSAT133756
6	lnc-GRIN3A-3	chr9:105126760-105126881	NONHSAT133764
7	lnc-GRIN3A-3	chr9:105117245-105117384	ucscGeneNc_uc004bbt_2
8	lnc-GRIN3A-3	chr9:105079433-105079602	NONHSAT133756
9	lnc-GRIN3A-3	chr9:105078134-105078251	NONHSAT133764
10	lnc-GRIN3A-3	chr9:105079433-105079602	ucscGeneNc_uc004bbt_2
11	lnc-GRIN3A-3	chr9:105122117-105122289	ucscGeneNc_uc004bbt_2
12	lnc-GRIN3A-3	chr9:105078134-105078251	NONHSAT133756
13	lnc-GRIN3A-3	chr9:105122117-105122289	NONHSAT133756
14	lnc-GRIN3A-3	chr9:105117245-105117384	NONHSAT133764

No data

Extended variants
information (count: 172 )
Associated
traits (count: 66 )

Variant overlapped rSNPs/rCNVs (count:172 , 50 per page) page: 1 2 3 4

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs537005041	chr9:105078143-105078144	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
2	rs562688893	chr9:105078150-105078151	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
3	rs556947900	chr9:105078160-105078161	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
4	rs533105634	chr9:105078210-105078211	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
5	rs184923653	chr9:105078219-105078220	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
6	rs115294889	chr9:105078228-105078229	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
7	rs187782000	chr9:105078234-105078235	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
8	rs573891820	chr9:105078236-105078237	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
9	rs111391641	chr9:105078237-105078238	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
10	rs72734549	chr9:105078250-105078251	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
11	rs186470438	chr9:105079480-105079481	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
12	rs539808038	chr9:105079502-105079503	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
13	rs553721143	chr9:105079530-105079531	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
14	rs143743591	chr9:105079546-105079547	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
15	rs374002342	chr9:105079549-105079550	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
16	rs556586992	chr9:105079553-105079554	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
17	rs386736927	chr9:105079554-105079555	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
18	rs542489769	chr9:105079555-105079556	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
19	rs562474493	chr9:105079558-105079559	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
20	rs531365913	chr9:105079561-105079562	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
21	rs557679751	chr9:105079563-105079564	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
22	rs564377018	chr9:105079567-105079568	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
23	rs148145966	chr9:105079570-105079571	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
24	rs546818363	chr9:105079584-105079585	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
25	rs116935211	chr9:105079586-105079587	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
26	rs529342056	chr9:105079599-105079600	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
27	rs373202951	chr9:105079602-105079603	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
28	rs183417153	chr9:105115021-105115022	Enhancers	n/a	n/a	Overlapped CNVs	n/a
29	rs548129696	chr9:105115023-105115024	Enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs187536917	chr9:105115029-105115030	Enhancers	n/a	n/a	Overlapped CNVs	n/a
31	rs191474268	chr9:105115103-105115104	Enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs374385663	chr9:105115187-105115188	Enhancers	n/a	n/a	Overlapped CNVs	n/a
33	rs114354966	chr9:105115192-105115193	Enhancers	n/a	n/a	Overlapped CNVs	n/a
34	rs73506621	chr9:105115200-105115201	Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
35	rs570447714	chr9:105115229-105115230	Enhancers	n/a	n/a	Overlapped CNVs	n/a
36	rs539226097	chr9:105115245-105115246	Enhancers	n/a	n/a	Overlapped CNVs	n/a
37	rs183196600	chr9:105115274-105115275	Enhancers	n/a	n/a	Overlapped CNVs	n/a
38	rs566154341	chr9:105115315-105115316	Enhancers	n/a	n/a	Overlapped CNVs	n/a
39	rs534815309	chr9:105115327-105115328	Enhancers	n/a	n/a	Overlapped CNVs	n/a
40	rs554903364	chr9:105115330-105115331	Enhancers	n/a	n/a	Overlapped CNVs	n/a
41	rs7032916	chr9:105115334-105115335	Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
42	rs557416424	chr9:105117245-105117246	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
43	rs577344421	chr9:105117269-105117270	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
44	rs567462004	chr9:105117293-105117294	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
45	rs189554017	chr9:105117311-105117312	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
46	rs200804444	chr9:105122156-105122157	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
47	rs541550056	chr9:105122204-105122205	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
48	rs150161399	chr9:105122225-105122226	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
49	rs10465150	chr9:105122814-105122815	Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
50	rs372796448	chr9:105122878-105122879	Enhancers	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:66)

Disease	PMID	Source
Chordoma	18071362	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Chordoma	21602918	CNVD
Renal cell carcinoma	18592004	CNVD
Developmental delay	19490664	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Pleomorphic xanthoastrocytoma	20730472	CNVD
Medulloblastoma	21979893	CNVD
microdeletion syndrome	16199537	CNVD
Ovarian cancer	21720365	CNVD
Non-syndromic sensorineural hearing loss	21030649	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Cancer	20164919	CNVD
Urothelial carcinoma	21177765	CNVD
Renal cell carcinoma	21668985	CNVD
Autism	22495311	CNVD
Melanoma	18172304	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Cancer	16751803	CNVD
Myelofibrosis	22110671	CNVD
lymphocytic leukemia	21291569	CNVD
Leukemia	17361228	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Glioblastoma	16823260	CNVD
Leukemia	18688285	CNVD
Non-small cell lung cancer	21044232	CNVD
Brain cancer	20823417	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Astrocytoma	17387387	CNVD
Glioblastoma multiforme	21080181	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Renal cell carcinoma	19461508	CNVD
Neuroblastoma	18923191	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Heart disease	21282601	CNVD
Acute promyelocytic leukemia	19109227	CNVD
Lung cancer	18438408	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Acute myeloid leukemia	21251322	CNVD
Gastrointestinal stromal cancer	16982739	CNVD
Breast cancer	17603634	CNVD
Acute myeloid leukemia	20729466	CNVD
Oral cancer	21386901	CNVD
Invasive pancreatic ductal carcinoma	16982739	CNVD
T-cell acute lymphoblastic leukemia	18185524	CNVD
Prostate cancer	18632612	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Gastric cancer	17908304	CNVD
Gastrointestinal stromal cancer	20877625	CNVD
Malignant fibrous histiocytomas	21085701	CNVD
small cell lung cancer	20016488	CNVD
Cardiac fibroma	18329553	CNVD
Breast cancer	17133270	CNVD
Acute lymphoblastic leukemia	21980252	CNVD
T-cell acute lymphoblastic leukemia	19406988	CNVD
Fukuyama congenital muscular dystrophy	21572526	CNVD
Testicular germ cell tumor	18059402	CNVD
Acute lymphoblastic leukemia	18458336	CNVD
Mantle cell lymphoma	19029149	CNVD
Intracranial aneurysm	16715129	CNVD
Neuroblastoma	20406844	CNVD
Pancreatic cancer	17952125	CNVD

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:105115000-105115400	Enhancers	Pancreatic Islets	Pancreatic Islet
2	chr9:105122800-105124000	Enhancers	Liver	Liver
3	chr9:105124000-105124800	Weak transcription	Liver	Liver
4	chr9:105124800-105125400	Enhancers	Liver	Liver

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