Variant report

Variant	esv3355568
Chromosome Location	chr19:24053612-24057810
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RPSAP58-3	chr19:24051557-24054170	NONHSAT063941
2	lnc-RPSAP58-3	chr19:24053508-24054170	NONHSAT063942

Extended variants
information (count: 235 )
Associated
traits (count: 41 )

Variant overlapped rSNPs/rCNVs (count:235 , 50 per page) page: 1 2 3 4 5

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs185177515	chr19:24053625-24053626	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
2	rs114400541	chr19:24053635-24053636	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
3	rs576568706	chr19:24053680-24053681	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
4	rs543993914	chr19:24053700-24053701	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
5	rs536661588	chr19:24053731-24053732	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
6	rs140459199	chr19:24053743-24053744	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
7	rs1065019	chr19:24053751-24053752	Weak transcription ZNF genes & repeats	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
8	rs541557073	chr19:24053759-24053760	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
9	rs559683968	chr19:24053767-24053768	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
10	rs142816968	chr19:24053780-24053781	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
11	rs189693496	chr19:24053781-24053782	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
12	rs117365131	chr19:24053794-24053795	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
13	rs180709513	chr19:24053818-24053819	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
14	rs11085652	chr19:24053821-24053822	Weak transcription ZNF genes & repeats	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
15	rs567929467	chr19:24053862-24053863	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
16	rs556132509	chr19:24053869-24053870	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
17	rs113587866	chr19:24053885-24053886	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
18	rs11085653	chr19:24053889-24053890	Weak transcription ZNF genes & repeats	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
19	rs528937913	chr19:24053912-24053913	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
20	rs547201271	chr19:24053916-24053917	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
21	rs565664789	chr19:24053931-24053932	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
22	rs186573961	chr19:24053939-24053940	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
23	rs557745701	chr19:24053966-24053967	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
24	rs570209819	chr19:24053975-24053976	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
25	rs373954234	chr19:24053978-24053979	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
26	rs555965416	chr19:24054008-24054009	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
27	rs574319324	chr19:24054013-24054014	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
28	rs117054052	chr19:24054026-24054027	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
29	rs191079472	chr19:24054029-24054030	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
30	rs147422291	chr19:24054042-24054043	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
31	rs4932930	chr19:24054060-24054061	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
32	rs139191351	chr19:24054067-24054068	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
33	rs149964703	chr19:24054072-24054073	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
34	rs531467153	chr19:24054114-24054115	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
35	rs59349782	chr19:24054133-24054134	Weak transcription ZNF genes & repeats	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
36	rs561520590	chr19:24054142-24054143	Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
37	rs529096761	chr19:24054174-24054175	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
38	rs145706887	chr19:24054224-24054225	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
39	rs148518418	chr19:24054226-24054227	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
40	rs6511669	chr19:24054231-24054232	Weak transcription ZNF genes & repeats	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
41	rs572310509	chr19:24054326-24054327	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
42	rs183745071	chr19:24054329-24054330	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
43	rs6511670	chr19:24054332-24054333	Weak transcription ZNF genes & repeats	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
44	rs7408800	chr19:24054344-24054345	Weak transcription ZNF genes & repeats	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
45	rs78654504	chr19:24054361-24054362	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
46	rs188316149	chr19:24054372-24054373	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
47	rs535276422	chr19:24054378-24054379	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
48	rs553533452	chr19:24054390-24054391	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
49	rs146577293	chr19:24054429-24054430	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
50	rs141333713	chr19:24054435-24054436	Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:41)

Disease	PMID	Source
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Prostate cancer	16573809	CNVD
Chordoma	18071362	CNVD
Metanephric adenoma	20802469	CNVD
Ewing''s sarcoma	21437220	CNVD
Glioblastoma multiforme	21080181	CNVD
Medulloblastoma	21979893	CNVD
Oligodendroglial tumors	17285580	CNVD
Oral cancer	21386901	CNVD
ovarian endometriomas	16273235	CNVD
Endometrial cancer	22040021	CNVD
Acute myeloid leukemia	16864856	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	17387387	CNVD
Cervical cancer	21063398	CNVD
Myelodysplastic syndrome	17634407	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Chordoma	21602918	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Cancer	21637783	CNVD
Retinoblastoma	21504564	CNVD
Ovarian cancer	21720365	CNVD
Cancer	20164919	CNVD
Thoracic aortic aneurysm	21092924	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Prostate cancer	18632612	CNVD
Autism	22495311	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Acute lymphoblastic leukemia	21248843	CNVD
Lung cancer	18438408	CNVD
Adenoid cystic carcinoma	18698036	CNVD
Myelofibrosis	22110671	CNVD
Cancer	21183584	CNVD
Colorectal cancer	20459617	CNVD
Ductal carcinoma	22052326	CNVD
Cancer	20164920	CNVD
small cell lung cancer	20016488	CNVD
Non-syndromic sensorineural hearing loss	21293372	CNVD
Renal cell carcinoma	18194544	CNVD
Pancreatic cancer	17952125	CNVD

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:24048000-24054600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr19:24048200-24059600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr19:24051600-24054200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
4	chr19:24052600-24054200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr19:24052600-24055000	Weak transcription	Ovary	ovary
6	chr19:24053400-24054600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
7	chr19:24054200-24057200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr19:24054600-24060000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr19:24054800-24056200	Enhancers	Liver	Liver

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