Variant report

Variant	nsv558607
Chromosome Location	chr12:40873763-40875983
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MUC19-1	chr12:40872855-40879178	NONHSAT027728

Extended variants
information (count: 132 )
Associated
traits (count: 58 )

Variant overlapped rSNPs/rCNVs (count:132 , 50 per page) page: 1 2 3

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs2588402	chr12:40873763-40873764	ZNF genes & repeats Strong transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
2	rs367931282	chr12:40873765-40873766	ZNF genes & repeats Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
3	rs145925435	chr12:40873770-40873771	ZNF genes & repeats Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
4	rs80355281	chr12:40873781-40873782	ZNF genes & repeats Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
5	rs2638863	chr12:40873808-40873809	Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
6	rs115105929	chr12:40873860-40873861	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
7	rs375024338	chr12:40873868-40873869	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
8	rs561044025	chr12:40873873-40873874	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
9	rs528516101	chr12:40873880-40873881	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
10	rs546695093	chr12:40873883-40873884	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
11	rs564900554	chr12:40873889-40873890	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
12	rs188795605	chr12:40873898-40873899	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
13	rs550973213	chr12:40873901-40873902	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
14	rs569570303	chr12:40873902-40873903	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
15	rs530847330	chr12:40873929-40873930	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
16	rs11176815	chr12:40873944-40873945	Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
17	rs372471718	chr12:40873977-40873978	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
18	rs139848670	chr12:40873989-40873990	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
19	rs567074805	chr12:40874079-40874080	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
20	rs2638864	chr12:40874088-40874089	Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
21	rs553121966	chr12:40874122-40874123	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
22	rs577539657	chr12:40874129-40874130	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
23	rs560703824	chr12:40874163-40874164	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
24	rs556965764	chr12:40874187-40874188	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
25	rs76581956	chr12:40874190-40874191	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
26	rs116125371	chr12:40874198-40874199	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
27	rs372547463	chr12:40874199-40874200	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
28	rs560706039	chr12:40874209-40874210	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
29	rs180819042	chr12:40874217-40874218	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
30	rs540300074	chr12:40874250-40874251	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
31	rs548956330	chr12:40874267-40874268	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
32	rs145228235	chr12:40874283-40874284	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
33	rs565063455	chr12:40874319-40874320	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
34	rs2638865	chr12:40874339-40874340	Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
35	rs550995403	chr12:40874357-40874358	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
36	rs149170137	chr12:40874383-40874384	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
37	rs142378065	chr12:40874397-40874398	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
38	rs548909034	chr12:40874436-40874437	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
39	rs567036234	chr12:40874466-40874467	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
40	rs532167126	chr12:40874556-40874557	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
41	rs546697424	chr12:40874611-40874612	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
42	rs547043419	chr12:40874632-40874633	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
43	rs571359232	chr12:40874643-40874644	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
44	rs185367345	chr12:40874672-40874673	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
45	rs373762800	chr12:40874679-40874680	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
46	rs367766073	chr12:40874686-40874687	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
47	rs372189089	chr12:40874691-40874692	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
48	rs191863810	chr12:40874696-40874697	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
49	rs74076586	chr12:40874700-40874701	Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
50	rs376747391	chr12:40874703-40874704	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a

Variant related diseases (count:58)

Disease	PMID	Source
Chronic lymphocytic leukemia	21546498	CNVD
Seminomas	18059402	CNVD
Wilms tumour	21544195	CNVD
Esophageal cancer	21851588	CNVD
Lung cancer	20668451	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
Ewing''s sarcoma	21437220	CNVD
Testicular germ cell tumor	18059402	CNVD
Medulloblastoma	21979893	CNVD
Malaria	21533027	CNVD
Chronic lymphocytic leukemia	22228453	CNVD
Basal cell lymphoma	17053054	CNVD
Chronic lymphocytic leukemia	21670202	CNVD
Ewing''s sarcoma	17952124	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Autism	22495311	CNVD
Cancer	20164919	CNVD
Neurodevelopmental disorder	22521361	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Renal cell carcinoma	18194544	CNVD
Breast cancer	21949216	CNVD
Carcinoma ex pleomorphic adenoma	18828159	CNVD
Acute myeloid leukemia	16864856	CNVD
Cancer	21637783	CNVD
Glioblastoma multiforme	21080181	CNVD
Renal cell carcinoma	19461508	CNVD
Burkitt''s lymphoma	18698080	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	19960244	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Adenoid cystic carcinoma	17372589	CNVD
Myelofibrosis	22110671	CNVD
Breast cancer	17603634	CNVD
Cancer	21183584	CNVD
Hirschsprung''s Disease	21712996	CNVD
Lissencephaly	21572526	CNVD
Lung cancer	18438408	CNVD
Acute myeloid leukemia	21251322	CNVD
small cell lung cancer	20016488	CNVD
Autism	20858243	CNVD
Malignant peripheral nerve sheath tumor	18522746	CNVD
Adenoid cystic carcinoma	18698036	CNVD
Breast cancer	19602461	CNVD
Breast cancer	17899364	CNVD
Cancer	20164920	CNVD
Colorectal cancer	16272173	CNVD
Breast cancer	21364760	CNVD
Breast cancer	22522925	CNVD
Pancreatic cancer	17952125	CNVD

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40872800-40873800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
2	chr12:40872800-40873800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr12:40873800-40875800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links