Variant report

Variant	nsv1011942
Chromosome Location	chr3:102779830-102834045
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZPLD1-2	chr3:102817066-102817185	XLOC_002743

Variant related genes	Relation type
HOXA9	miRNA target sites

Extended variants
information (count: 720 )
Associated
traits (count: 57 )

Variant overlapped rSNPs/rCNVs (count:720 , 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	rs552781874	chr3:102779835-102779836	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
2	rs545595149	chr3:102779837-102779838	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs78893630	chr3:102779892-102779893	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs192092107	chr3:102779934-102779935	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs568087077	chr3:102779947-102779948	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs826339	chr3:102780016-102780017	Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
7	rs826338	chr3:102780030-102780031	Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
8	rs111993702	chr3:102780039-102780040	Enhancers	n/a	n/a	Overlapped CNVs	n/a
9	rs73151216	chr3:102780062-102780063	Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
10	rs561344567	chr3:102780092-102780093	Enhancers	n/a	n/a	Overlapped CNVs	n/a
11	rs183519802	chr3:102780099-102780100	Enhancers	n/a	n/a	Overlapped CNVs	n/a
12	rs572761070	chr3:102780105-102780106	Enhancers	n/a	n/a	Overlapped CNVs	n/a
13	rs540158115	chr3:102780130-102780131	Enhancers	n/a	n/a	Overlapped CNVs	n/a
14	rs188513510	chr3:102780131-102780132	Enhancers	n/a	n/a	Overlapped CNVs	n/a
15	rs574476215	chr3:102780132-102780133	Enhancers	n/a	n/a	Overlapped CNVs	n/a
16	rs542235065	chr3:102780140-102780141	Enhancers	n/a	n/a	Overlapped CNVs	n/a
17	rs150047578	chr3:102780244-102780245	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
18	rs200542795	chr3:102780263-102780264	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
19	rs201377607	chr3:102780264-102780265	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs397699368	chr3:102780266-102780267	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs531072694	chr3:102780270-102780271	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs552451849	chr3:102780306-102780307	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs564675034	chr3:102780307-102780308	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs147719986	chr3:102780308-102780309	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs142595999	chr3:102780310-102780311	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs568807200	chr3:102780315-102780316	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs372424244	chr3:102780352-102780353	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs9862413	chr3:102780367-102780368	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
29	rs74661319	chr3:102780375-102780376	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs547295098	chr3:102780395-102780396	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs192105676	chr3:102780465-102780466	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs826337	chr3:102780467-102780468	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
33	rs567597493	chr3:102780502-102780503	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs201720044	chr3:102780508-102780509	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs551176636	chr3:102780553-102780554	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs7639922	chr3:102780582-102780583	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs187173726	chr3:102780592-102780593	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs555218982	chr3:102780603-102780604	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs573642998	chr3:102780636-102780637	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
40	rs137873687	chr3:102780644-102780645	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs191591326	chr3:102780681-102780682	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs79452156	chr3:102780693-102780694	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs115677864	chr3:102780728-102780729	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs536049280	chr3:102780815-102780816	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs576297847	chr3:102780834-102780835	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs369287697	chr3:102780835-102780836	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs564638450	chr3:102780921-102780922	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs528683762	chr3:102780936-102780937	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs549986094	chr3:102780955-102780956	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs116135589	chr3:102780977-102780978	Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:57)

Disease	PMID	Source
Medulloblastoma	21979893	CNVD
Basal cell lymphoma	17053054	CNVD
Esophageal cancer	21851588	CNVD
Uveal melanoma	21693616	CNVD
Glioblastoma multiforme	21080181	CNVD
Retinoblastoma	21504564	CNVD
Renal cell carcinoma	21668985	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Intellectual disability	22102821	CNVD
Breast cancer	17603634	CNVD
Uveal melanoma	20484589	CNVD
Autism	22495311	CNVD
Lung cancer	18438408	CNVD
Hirschsprung''s Disease	21712996	CNVD
Hepatocellular carcinoma	16750200	CNVD
Cancer	21183584	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Bipolar disorder	20877625	CNVD
Bipolar disorder	21956041	CNVD
Bipolar disorder	22241247	CNVD
Biliary cancer	18923514	CNVD
Prostate cancer	21965145	CNVD
Cancer	21129771	CNVD
Congenital diaphragmatic hernia	21085971	CNVD
Cervical cancer	21062161	CNVD
Squamous cell cancer	20885788	CNVD
Melanoma	18172304	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Bipolar disorder	18458673	CNVD
Breast cancer	22032731	CNVD
Neurodevelopmental disorder	22521361	CNVD
head and neck squamous cell carcinoma	17671120	CNVD
Breast cancer	16461572	CNVD
Neuroblastoma	17533364	CNVD
microdeletion syndrome	22180640	CNVD
Cervical Cancer	21857958	CNVD
Melanoma	21693616	CNVD
Lung cancer	21426551	CNVD
Cancer	21637783	CNVD
Cervical cancer	21063398	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Liposarcoma	21253554	CNVD
Oral cancer	21386901	CNVD
Renal cell carcinoma	19461508	CNVD
Cancer	22065749	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
small cell lung cancer	20016488	CNVD
Ductal carcinoma	22052326	CNVD
Breast cancer	16608533	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Myelofibrosis	22110671	CNVD
Breast cancer	22522925	CNVD
Non-syndromic sensorineural hearing loss	17431168	CNVD
Renal cell carcinoma	18765545	CNVD

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:102779600-102780000	Weak transcription	Fetal Intestine Small	intestine
2	chr3:102780000-102780200	Enhancers	Fetal Intestine Small	intestine
3	chr3:102780200-102784000	Weak transcription	Fetal Intestine Small	intestine
4	chr3:102784000-102784400	Enhancers	Fetal Intestine Small	intestine
5	chr3:102794400-102794600	Enhancers	Fetal Kidney	kidney
6	chr3:102795800-102797400	Enhancers	Fetal Intestine Large	intestine
7	chr3:102796000-102797400	Enhancers	Fetal Intestine Small	intestine
8	chr3:102796600-102796800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:102796600-102799000	Weak transcription	Fetal Kidney	kidney
10	chr3:102796800-102800800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:102797400-102797800	Weak transcription	Fetal Intestine Large	intestine
12	chr3:102797400-102799000	Weak transcription	Fetal Intestine Small	intestine
13	chr3:102797800-102798000	Enhancers	Fetal Intestine Large	intestine
14	chr3:102798000-102799000	Weak transcription	Fetal Intestine Large	intestine
15	chr3:102799000-102799400	Enhancers	Fetal Intestine Large	intestine
16	chr3:102799000-102799400	Enhancers	Fetal Intestine Small	intestine
17	chr3:102799000-102799600	Active TSS	Fetal Lung	lung
18	chr3:102799400-102802800	Weak transcription	Fetal Intestine Large	intestine
19	chr3:102799400-102802800	Weak transcription	Fetal Intestine Small	intestine
20	chr3:102800800-102801000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr3:102801000-102802000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr3:102802000-102802200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr3:102802800-102805400	Enhancers	Fetal Intestine Large	intestine
24	chr3:102802800-102805400	Enhancers	Fetal Intestine Small	intestine
25	chr3:102803400-102805600	Enhancers	Fetal Kidney	kidney
26	chr3:102804000-102805200	Enhancers	Duodenum Mucosa	Duodenum
27	chr3:102805400-102806400	Weak transcription	Fetal Intestine Large	intestine
28	chr3:102805400-102806400	Weak transcription	Fetal Intestine Small	intestine
29	chr3:102805800-102806200	Enhancers	Hela-S3	cervix
30	chr3:102806400-102807200	Enhancers	Fetal Intestine Large	intestine
31	chr3:102806600-102806800	Enhancers	Fetal Intestine Small	intestine
32	chr3:102824400-102825000	Active TSS	Fetal Intestine Large	intestine
33	chr3:102830800-102831400	Enhancers	iPS-18 Cell Line	embryonic stem cell
34	chr3:102831000-102831400	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr3:102831000-102831400	Enhancers	iPS-20b Cell Line	embryonic stem cell
36	chr3:102831000-102831600	Enhancers	H9 Cell Line	embryonic stem cell
37	chr3:102831000-102831600	Enhancers	HUES48 Cell Line	embryonic stem cell
38	chr3:102831000-102831600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr3:102831000-102832000	Enhancers	H1 Cell Line	embryonic stem cell
40	chr3:102831200-102831800	Enhancers	HUES64 Cell Line	embryonic stem cell
41	chr3:102831400-102831800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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