Variant report

Variant	nsv946325
Chromosome Location	chr1:152221751-152240196
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LCE5A-2	chr1:152224129-152224234	ENSG00000237975

Variant related genes	Relation type
PLSCR4	miRNA target sites

Extended variants
information (count: 710 )
Associated
traits (count: 121 )

Variant overlapped rSNPs/rCNVs (count:710 , 50 per page) page: 1 2 3 4 5 6 7 ... 15

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs546606764	chr1:152221824-152221825	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
2	rs566839362	chr1:152221841-152221842	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs558466599	chr1:152221859-152221860	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs112279949	chr1:152221861-152221862	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs535975398	chr1:152221904-152221905	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs184252907	chr1:152221911-152221912	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs569076638	chr1:152221932-152221933	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs538039029	chr1:152222005-152222006	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
9	rs60758929	chr1:152222045-152222046	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
10	rs148241350	chr1:152222104-152222105	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs140327980	chr1:152222129-152222130	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs533751853	chr1:152222139-152222140	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
13	rs114642548	chr1:152222144-152222145	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
14	rs573650452	chr1:152222155-152222156	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs4511113	chr1:152222192-152222193	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
16	rs10888474	chr1:152222230-152222231	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
17	rs11204950	chr1:152222236-152222237	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
18	rs574090858	chr1:152222239-152222240	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
19	rs541081509	chr1:152222265-152222266	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs78124248	chr1:152222272-152222273	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs564406507	chr1:152222310-152222311	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs533480122	chr1:152222331-152222332	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs540212961	chr1:152222334-152222335	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs150740650	chr1:152222357-152222358	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs559336458	chr1:152222411-152222412	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs535809478	chr1:152222442-152222443	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs74636452	chr1:152222446-152222447	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs549409054	chr1:152222451-152222452	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
29	rs569271366	chr1:152222452-152222453	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs145367215	chr1:152222480-152222481	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs551634558	chr1:152222555-152222556	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs571542904	chr1:152222566-152222567	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
33	rs533187716	chr1:152222571-152222572	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs553479710	chr1:152222582-152222583	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs372602065	chr1:152222586-152222587	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs137913821	chr1:152222605-152222606	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs535874329	chr1:152222631-152222632	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs556195962	chr1:152222645-152222646	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs551340179	chr1:152222710-152222711	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
40	rs576073631	chr1:152222715-152222716	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs142352084	chr1:152222749-152222750	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs530702704	chr1:152222762-152222763	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs549168043	chr1:152222788-152222789	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs557960218	chr1:152222798-152222799	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs140304509	chr1:152222808-152222809	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs114270687	chr1:152222814-152222815	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs74826441	chr1:152222816-152222817	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs560633571	chr1:152222831-152222832	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs569575054	chr1:152222850-152222851	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs7534986	chr1:152222880-152222881	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a

Variant related diseases (count:121)

Disease	PMID	Source
Breast cancer	17603634	CNVD
Esophageal squamous carcinoma	21637470	CNVD
HIV/AIDS	22032296	CNVD
Schizophrenia	19415332	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Autism	22495311	CNVD
Cancer	21129771	CNVD
Non-small cell lung cancer	21385341	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
Ewing''s sarcoma	21437220	CNVD
Liposarcoma	21253554	CNVD
Diffuse large b-cell lymphoma	18287131	CNVD
Hepatocellular carcinoma	16750200	CNVD
Burkitt''s lymphoma	18698080	CNVD
Melanoma	18172304	CNVD
Breast cancer	20409316	CNVD
Splenic marginal zone lymphoma	21957467	CNVD
Breast cancer	17393978	CNVD
Cervical cancer	21062161	CNVD
Glioblastoma multiforme	21080181	CNVD
Cancer	21183584	CNVD
Multiple myeloma	16461302	CNVD
Lung cancer	18438408	CNVD
Rett syndrome	21593744	CNVD
Intellectual disability	22102821	CNVD
Cancer	20164919	CNVD
Medulloblastoma	21979893	CNVD
Systemic lupus erythematosus	21956041	CNVD
Acute lymphoblastic leukemia	17443227	CNVD
Wilms tumour	21544195	CNVD
Breast cancer	17133270	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Non-small cell lung cancer	21829676	CNVD
Carcinoma ex pleomorphic adenoma	18828159	CNVD
Non-small cell lung cancer	21044232	CNVD
Cervical cancer	21063398	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	20632083	CNVD
Endometrial cancer	22040021	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Glioblastoma multiforme	19960244	CNVD
Hepatocellular carcinoma	22174799	CNVD
Medulloblastoma	21292688	CNVD
Phyllodes tumor	17334353	CNVD
Breast cancer	21264507	CNVD
Multiple myeloma	21628407	CNVD
Cancer	16751803	CNVD
Prostate cancer	16705090	CNVD
Neuroblastoma	19435921	CNVD
Breast cancer	17850661	CNVD
Breast cancer	16461572	CNVD
Intracranial tumor	16823260	CNVD
Medulloblastoma	18056178	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Primary mediastinal b-cell lymphoma	17728785	CNVD
Colorectal cancer	16272173	CNVD
Acute lymphoblastic leukemia	21098271	CNVD
Neuroblastoma	21899760	CNVD
Breast cancer	17899364	CNVD
Bladder cancer	19088036	CNVD
Ovarian neoplasms	16753589	CNVD
Glioblastoma multiforme	17002787	CNVD
Breast cancer	21858162	CNVD
Breast cancer	21611746	CNVD
Retinoblastoma	19183342	CNVD
Invasive pancreatic ductal carcinoma	16982739	CNVD
Acute lymphoblastic leukemia	21980252	CNVD
Breast cancer	16608533	CNVD
Ewing''s sarcoma	22429812	CNVD
Acute promyelocytic leukemia	19109227	CNVD
Ewing''s sarcoma	17952124	CNVD
Osteosarcoma	17242211	CNVD
Ovarian cancer	17242211	CNVD
Ovine squamous-cell carcinoma	17599052	CNVD
Schizophrenia	18990708	CNVD
Sudden cardiac death	19188705	CNVD
Plasma-cell dyscrasia	16705089	CNVD
Myeloma	17024118	CNVD
Cancer	17060936	CNVD
Multiple myeloma	16616336	CNVD
Type 2 diabetes	19141583	CNVD
Chordoma	18071362	CNVD
Hepatocellular carcinoma	18803288	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Breast cancer	17001317	CNVD
Urothelial carcinoma	21177765	CNVD
Burkitt''s lymphoma	19759907	CNVD
Acute myeloid leukemia	21251322	CNVD
Multiple myeloma	17550852	CNVD
Prostate cancer	18632612	CNVD
Follicular lymphoma	18703704	CNVD
Breast cancer	21509527	CNVD
Bladder cancer	21909424	CNVD
Acute myeloid leukemia	20729466	CNVD
Hodgkin''s lymphoma	17606441	CNVD
small cell lung cancer	20016488	CNVD
Ovarian clear cell carcinoma	21343371	CNVD
Malignant fibrous histiocytomas	21085701	CNVD
Myelofibrosis	22110671	CNVD
Liver carcinoma	19366792	CNVD
Testicular germ cell tumor	18059402	CNVD
Trisomy 5 syndrome	21098271	CNVD
Ependymoma	18628472	CNVD
Leukemia	18628472	CNVD
Gastrointestinal cancer	16790693	CNVD
Esophageal adenocarcinoma	18519675	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Chronic lymphocytic leukemia	22228453	CNVD
Glioblastoma multiforme	21138945	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Pancreatic cancer	17952125	CNVD
Breast cancer	22522925	CNVD
Non-syndromic sensorineural hearing loss	21293372	CNVD

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:152218600-152224600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr1:152218800-152223200	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr1:152219400-152230200	Weak transcription	Ovary	ovary
4	chr1:152219800-152224400	Enhancers	NHEK	skin
5	chr1:152220600-152224000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr1:152220800-152230400	Weak transcription	Brain Angular Gyrus	brain
7	chr1:152221000-152222200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr1:152221600-152222600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr1:152222200-152225600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr1:152222600-152224400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr1:152223200-152224400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr1:152223200-152230400	Weak transcription	Stomach Smooth Muscle	stomach
13	chr1:152223400-152228400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr1:152223600-152225400	Enhancers	HMEC	breast
15	chr1:152223600-152229600	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr1:152223800-152225200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr1:152224000-152225400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr1:152224400-152224600	Enhancers	Fetal Kidney	kidney
19	chr1:152224400-152224800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr1:152224400-152225200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr1:152224400-152225200	Flanking Active TSS	NHEK	skin
22	chr1:152224400-152226200	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr1:152224600-152225200	Weak transcription	Aorta	Aorta
24	chr1:152224600-152225400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr1:152224600-152230400	Weak transcription	Fetal Kidney	kidney
26	chr1:152224800-152225800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr1:152225000-152225400	Enhancers	Esophagus	oesophagus
28	chr1:152225200-152225600	ZNF genes & repeats	Aorta	Aorta
29	chr1:152225200-152225600	Enhancers	NHEK	skin
30	chr1:152225400-152229000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr1:152225400-152229000	Weak transcription	Esophagus	oesophagus
32	chr1:152225400-152232200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr1:152225600-152229000	Weak transcription	Aorta	Aorta
34	chr1:152225600-152232200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr1:152226400-152228000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
36	chr1:152229000-152229200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr1:152229000-152229200	ZNF genes & repeats	Esophagus	oesophagus
38	chr1:152229000-152229400	ZNF genes & repeats	Aorta	Aorta
39	chr1:152229400-152230200	Weak transcription	Aorta	Aorta
40	chr1:152229600-152230800	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
41	chr1:152230200-152230400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr1:152230200-152230600	ZNF genes & repeats	Aorta	Aorta
43	chr1:152230200-152230600	ZNF genes & repeats	Duodenum Mucosa	Duodenum
44	chr1:152230200-152230600	ZNF genes & repeats	Fetal Stomach	stomach
45	chr1:152230200-152230600	ZNF genes & repeats	Left Ventricle	heart
46	chr1:152230200-152230600	ZNF genes & repeats	Ovary	ovary
47	chr1:152230200-152230600	ZNF genes & repeats	Psoas Muscle	Psoas
48	chr1:152230200-152230800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr1:152230200-152230800	ZNF genes & repeats	Adipose Nuclei	Adipose
50	chr1:152230200-152230800	ZNF genes & repeats	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links