Variant report

Variant	nsv900845
Chromosome Location	chr13:89758695-89864818
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:89843854..89844646-chr17:66927017..66927781,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLITRK6-24	chr13:89815360-89815434	NONHSAT034620
2	lnc-SLITRK6-24	chr13:89811759-89811902	NONHSAT034620

Extended variants
information (count: 721 )
Associated
traits (count: 88 )

Variant overlapped rSNPs/rCNVs (count:721 , 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	rs565411249	chr13:89761807-89761808	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
2	rs76265233	chr13:89761845-89761846	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs192683151	chr13:89761856-89761857	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs554002599	chr13:89761876-89761877	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs567266968	chr13:89761932-89761933	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs530012313	chr13:89761953-89761954	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs562880360	chr13:89762028-89762029	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs530370560	chr13:89762046-89762047	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
9	rs548887794	chr13:89762076-89762077	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
10	rs560448607	chr13:89762131-89762132	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs572950615	chr13:89762159-89762160	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs9515525	chr13:89762207-89762208	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
13	rs114441504	chr13:89762220-89762221	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
14	rs570257594	chr13:89762229-89762230	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs566872259	chr13:89762263-89762264	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
16	rs12864435	chr13:89762307-89762308	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
17	rs142518902	chr13:89762308-89762309	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
18	rs9515526	chr13:89762325-89762326	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
19	rs368890075	chr13:89762370-89762371	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs67998815	chr13:89762371-89762372	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs567719197	chr13:89762383-89762384	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs71103337	chr13:89762386-89762387	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs139593768	chr13:89762394-89762395	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs535359625	chr13:89762449-89762450	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs111382716	chr13:89762465-89762466	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs557955778	chr13:89762490-89762491	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs184872709	chr13:89762517-89762518	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs556912522	chr13:89762519-89762520	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
29	rs572130033	chr13:89762540-89762541	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs187615128	chr13:89762543-89762544	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs544806634	chr13:89762560-89762561	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs117221967	chr13:89762573-89762574	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
33	rs577371705	chr13:89762601-89762602	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs192948368	chr13:89762631-89762632	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs374507613	chr13:89762635-89762636	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs562845436	chr13:89762655-89762656	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs61958870	chr13:89762681-89762682	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs542145318	chr13:89762737-89762738	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs560869700	chr13:89762771-89762772	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
40	rs185146932	chr13:89762798-89762799	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs576782613	chr13:89762857-89762858	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs143361533	chr13:89762875-89762876	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs564346463	chr13:89762881-89762882	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs569469903	chr13:89762901-89762902	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs200325478	chr13:89762914-89762915	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs531255687	chr13:89762971-89762972	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs564734975	chr13:89762989-89762990	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs427646	chr13:89762995-89762996	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
49	rs57542501	chr13:89763012-89763013	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
50	rs547351633	chr13:89763040-89763041	Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:88)

Disease	PMID	Source
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	21080181	CNVD
HIV/AIDS	22032296	CNVD
Prostate cancer	16705090	CNVD
High-proliferative meningiomas	17937814	CNVD
Cancer	20164919	CNVD
Autism	22495311	CNVD
Chordoma	21602918	CNVD
Bladder cancer	21949216	CNVD
Acute myeloid leukemia	16864856	CNVD
Burkitt''s lymphoma	18698080	CNVD
Cancer	21637783	CNVD
Medulloblastoma	21979893	CNVD
Chronic lymphocytic leukemia	21518781	CNVD
colon cancer	17210682	CNVD
Endometrial cancer	22040021	CNVD
Colorectal cancer	20709793	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	19960244	CNVD
Glioblastoma multiforme	17387387	CNVD
Hepatocellular carcinoma	22174799	CNVD
Ovarian cancer	20844748	CNVD
Colorectal cancer	19359472	CNVD
Intracranial aneurysm	19064780	CNVD
Breast cancer	19287154	CNVD
Acute myeloid leukemia	18379011	CNVD
Human rectal carcinomas	16397240	CNVD
Olfactory neuroblastoma	18408657	CNVD
Multiple myeloma	17077331	CNVD
Ependymoma	16718352	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Colorectal cancer	16272173	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Gastrointestinal stromal cancer	16982739	CNVD
Breast cancer	16608533	CNVD
Neuroblastoma	18923191	CNVD
Ovarian cancer	22174824	CNVD
Myoepithelioma	18604193	CNVD
Breast cancer	17133270	CNVD
Prostate cancer	18632612	CNVD
Small bowel adenocarcinoma	21586687	CNVD
Developmental delay	21147756	CNVD
Melanoma	18172304	CNVD
Prostate cancer	16573809	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Basal cell lymphoma	17053054	CNVD
Non-syndromic sensorineural hearing loss	18496225	CNVD
Metanephric adenoma	20802469	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Gastric cancer	17908304	CNVD
Splenic marginal zone lymphoma	18492102	CNVD
Liposarcoma	21253554	CNVD
Acute promyelocytic leukemia	19109227	CNVD
Chronic lymphocytic leukemia	20421269	CNVD
Acute lymphoblastic leukemia	21980252	CNVD
Acute myeloid leukemia	20729466	CNVD
abnormal development	18461090	CNVD
small cell lung cancer	20016488	CNVD
Lung cancer	18438408	CNVD
Non-syndromic sensorineural hearing loss	20606397	CNVD
Congenital anomalies of the kidney and urinary tract	18316590	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Esophageal cancer	21851588	CNVD
Prostate cancer	21965145	CNVD
Gastrointestinal stromal cancer	20818650	CNVD
Cancer	21220470	CNVD
Cancer	21183584	CNVD
Omodysplasia	19481194	CNVD
Breast cancer	22032731	CNVD
Mantle cell lymphoma	19690137	CNVD
Rhabdomyosarcoma	17210683	CNVD
Ovarian clear cell carcinoma	21343371	CNVD
Breast cancer	21364760	CNVD
Mental retardation	17847001	CNVD
Medulloblastoma	19270706	CNVD
Myelofibrosis	22110671	CNVD
coloboma	21285886	CNVD
Cancer	20164920	CNVD
Non-small cell lung cancer	16651412	CNVD
Burkitt''s lymphoma	19759907	CNVD
Autism	20841430	CNVD
Wilms tumour	21544195	CNVD

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:89761800-89765400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr13:89764800-89766000	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr13:89764800-89766800	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr13:89765400-89766600	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr13:89765400-89767200	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr13:89765600-89766200	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr13:89765600-89766200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr13:89765600-89767400	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr13:89766000-89766400	Enhancers	H1 Cell Line	embryonic stem cell
10	chr13:89766000-89766400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr13:89766000-89766400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr13:89766000-89766400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
13	chr13:89766000-89767000	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr13:89766400-89767800	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr13:89788800-89789200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr13:89813800-89816000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr13:89815000-89815600	Active TSS	Placenta	Placenta
18	chr13:89815200-89815800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr13:89822000-89822600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr13:89822200-89822600	Enhancers	Adipose Nuclei	Adipose
21	chr13:89822200-89822600	Enhancers	Fetal Heart	heart
22	chr13:89850800-89851200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr13:89850800-89851400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr13:89850800-89851400	Enhancers	HMEC	breast
25	chr13:89850800-89851400	Enhancers	NHEK	skin
26	chr13:89850800-89852400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr13:89851200-89852200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr13:89851400-89851800	Flanking Active TSS	NHEK	skin
29	chr13:89851400-89852000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr13:89851800-89852800	Enhancers	NHEK	skin
31	chr13:89852000-89852200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr13:89852200-89852800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr13:89852800-89857200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr13:89857200-89858000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr13:89858000-89858600	Enhancers	HUES48 Cell Line	embryonic stem cell
36	chr13:89858000-89858600	Enhancers	Fetal Lung	lung
37	chr13:89858200-89858600	Enhancers	HUES6 Cell Line	embryonic stem cell
38	chr13:89860400-89861200	Enhancers	iPS-15b Cell Line	embryonic stem cell

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