Variant report

Variant	nsv549437
Chromosome Location	chr1:239659953-239677004
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FMN2-6	chr1:239663095-239663415	NONHSAT010475
2	lnc-FMN2-6	chr1:239663095-239663251	NONHSAT010474

Extended variants
information (count: 629 )
Associated
traits (count: 86 )

Variant overlapped rSNPs/rCNVs (count:629 , 50 per page) page: 1 2 3 4 5 6 7 ... 13

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs55838445	chr1:239659953-239659954	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
2	rs566273926	chr1:239659975-239659976	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs547465147	chr1:239660075-239660076	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs565592900	chr1:239660148-239660149	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs116022290	chr1:239660170-239660171	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs557909239	chr1:239660191-239660192	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs576127094	chr1:239660238-239660239	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs565458647	chr1:239660301-239660302	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
9	rs543513523	chr1:239660307-239660308	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
10	rs555102454	chr1:239660363-239660364	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs140973494	chr1:239660371-239660372	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs145056466	chr1:239660423-239660424	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
13	rs1338909	chr1:239660436-239660437	Weak transcription Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
14	rs533108884	chr1:239660453-239660454	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs372553190	chr1:239660472-239660473	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
16	rs191150806	chr1:239660478-239660479	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
17	rs563319215	chr1:239660501-239660502	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
18	rs566282164	chr1:239660510-239660511	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
19	rs530570995	chr1:239660530-239660531	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs549105400	chr1:239660568-239660569	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs115554810	chr1:239660611-239660612	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs77612043	chr1:239660684-239660685	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs547712498	chr1:239660695-239660696	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs537334008	chr1:239660704-239660705	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs116762184	chr1:239660733-239660734	Weak transcription ZNF genes & repeats Strong transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs555680395	chr1:239660813-239660814	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
27	rs138924428	chr1:239660814-239660815	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
28	rs574175711	chr1:239660821-239660822	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
29	rs113820219	chr1:239660849-239660850	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
30	rs142134032	chr1:239660871-239660872	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
31	rs576740261	chr1:239660877-239660878	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
32	rs114684508	chr1:239660915-239660916	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
33	rs537114655	chr1:239660999-239661000	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
34	rs146378173	chr1:239661243-239661244	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
35	rs10925891	chr1:239661311-239661312	Weak transcription ZNF genes & repeats	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
36	rs138862718	chr1:239661334-239661335	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
37	rs553543716	chr1:239661402-239661403	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
38	rs543852376	chr1:239661416-239661417	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
39	rs35458276	chr1:239661511-239661512	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
40	rs552931785	chr1:239661532-239661533	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
41	rs577865281	chr1:239661590-239661591	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
42	rs377608245	chr1:239661610-239661611	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
43	rs75743437	chr1:239661636-239661637	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
44	rs544974999	chr1:239661641-239661642	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
45	rs563231712	chr1:239661716-239661717	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
46	rs17585014	chr1:239661743-239661744	Weak transcription ZNF genes & repeats	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
47	rs188889593	chr1:239661765-239661766	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
48	rs138316613	chr1:239661786-239661787	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
49	rs545542143	chr1:239661804-239661805	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
50	rs149649675	chr1:239661805-239661806	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:86)

Disease	PMID	Source
Esophageal squamous carcinoma	21637470	CNVD
HIV/AIDS	22032296	CNVD
Schizophrenia	19415332	CNVD
Autism	22495311	CNVD
Melanoma	18172304	CNVD
Rett syndrome	21593744	CNVD
Medulloblastoma	21979893	CNVD
Cancer	20164919	CNVD
Wilms tumour	21544195	CNVD
Breast cancer	17133270	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
Ewing''s sarcoma	21437220	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Glioblastoma multiforme	19960244	CNVD
Glioblastoma multiforme	21080181	CNVD
Hepatocellular carcinoma	22174799	CNVD
Medulloblastoma	21292688	CNVD
Phyllodes tumor	17334353	CNVD
Breast cancer	21264507	CNVD
Liposarcoma	21253554	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
Breast cancer	17603634	CNVD
Neuroblastoma	21899760	CNVD
Breast cancer	21858162	CNVD
Non-small cell lung cancer	21385341	CNVD
Acute lymphoblastic leukemia	21980252	CNVD
Breast cancer	16608533	CNVD
Ewing''s sarcoma	22429812	CNVD
Acute promyelocytic leukemia	19109227	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Breast cancer	17001317	CNVD
Acute myeloid leukemia	21251322	CNVD
Multiple myeloma	17550852	CNVD
Prostate cancer	18632612	CNVD
Acute myeloid leukemia	20729466	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Testicular germ cell tumor	18059402	CNVD
Ependymoma	18628472	CNVD
Leukemia	18628472	CNVD
Neuroblastoma	18923191	CNVD
Acute lymphoblastic leukemia	19100363	CNVD
Breast cancer	21509527	CNVD
Urothelial carcinoma	21177765	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Chordoma	18071362	CNVD
T-cell lymphomas	19863542	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Hepatocellular carcinoma	18803288	CNVD
Urothelial tumor	18831757	CNVD
Lung cancer	18438408	CNVD
Medulloblastoma	16783165	CNVD
Basal cell lymphoma	17170743	CNVD
Basal cell lymphoma	17053054	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Congenital abnormalities	21549014	CNVD
Developmental delay	21549014	CNVD
Mental retardation	21549014	CNVD
small cell lung cancer	20016488	CNVD
Cancer	20164920	CNVD
Cancer	17060936	CNVD
abnormal development	18461090	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Myelofibrosis	22110671	CNVD
Acute lymphoblastic leukemia	17443227	CNVD
Myxofibrosarcoma	16751306	CNVD
Non-small cell lung cancer	21829676	CNVD
Hepatocellular carcinoma	16750200	CNVD
Arrhythmogenic right ventricular cardiomyopathy	17576883	CNVD
Multiple myeloma	16616336	CNVD
Developmental delay	21147756	CNVD

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:239647000-239665200	Weak transcription	Colon Smooth Muscle	Colon
2	chr1:239657400-239675200	Weak transcription	Ovary	ovary
3	chr1:239657800-239660600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr1:239658200-239660800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr1:239658200-239662200	Weak transcription	Primary hematopoietic stem cells	blood
6	chr1:239659000-239662400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr1:239660600-239661400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr1:239660800-239664400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr1:239661400-239662400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr1:239662200-239663200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
11	chr1:239662400-239663000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
12	chr1:239662400-239663000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr1:239662600-239665600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr1:239663000-239663800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr1:239663000-239668600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr1:239663200-239664000	Weak transcription	Primary hematopoietic stem cells	blood
17	chr1:239664000-239664200	Strong transcription	Primary hematopoietic stem cells	blood
18	chr1:239664000-239664200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr1:239664200-239666200	Weak transcription	Primary hematopoietic stem cells	blood
20	chr1:239664400-239666800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr1:239665200-239665600	Active TSS	Primary T cells from cord blood	blood
22	chr1:239665200-239665600	Active TSS	Primary T helper cells PMA-I stimulated	--
23	chr1:239665200-239665800	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
24	chr1:239665200-239665800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr1:239665400-239665800	Active TSS	Primary T cells fromperipheralblood	blood
26	chr1:239665400-239665800	Active TSS	Primary T helper naive cells from peripheral blood	blood
27	chr1:239665400-239666400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
28	chr1:239665600-239665800	Flanking Active TSS	Primary T cells from cord blood	blood
29	chr1:239665600-239666000	Enhancers	Primary T killer memory cells from peripheral blood	blood
30	chr1:239665600-239666400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr1:239665800-239666000	Enhancers	Primary T cells from cord blood	blood
32	chr1:239665800-239666000	Enhancers	Primary T helper naive cells from peripheral blood	blood
33	chr1:239665800-239666000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr1:239666800-239673800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr1:239669400-239670800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
36	chr1:239669600-239670200	ZNF genes & repeats	Fetal Intestine Small	intestine
37	chr1:239669600-239670800	ZNF genes & repeats	Primary hematopoietic stem cells	blood
38	chr1:239670000-239672000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr1:239670800-239675600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
40	chr1:239670800-239678800	Weak transcription	Primary hematopoietic stem cells	blood
41	chr1:239672000-239675200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr1:239673800-239675200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr1:239674200-239675800	Enhancers	Colon Smooth Muscle	Colon
44	chr1:239674400-239675600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr1:239675200-239675800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr1:239675200-239676000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr1:239675200-239676400	Enhancers	Ovary	ovary
48	chr1:239675400-239675600	Enhancers	Pancreas	Pancrea
49	chr1:239675600-239676200	Enhancers	Primary hematopoietic stem cells short term culture	blood
50	chr1:239675600-239683600	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links