Variant report

Variant	nsv527351
Chromosome Location	chr10:98667529-98673807
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:98672007..98674057-chr10:98676669..98679215,2	MCF-7	breast:
2	chr10:98639236..98641151-chr10:98667693..98670015,2	MCF-7	breast:
3	chr10:98659194..98661620-chr10:98670186..98671771,2	MCF-7	breast:
4	chr10:98592597..98594395-chr10:98671639..98674346,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C10orf12-4	chr10:98667425-98667847	NONHSAT015839

Variant related genes	Relation type
ENSG00000196233	chromatin interactions

Extended variants
information (count: 250 )
Associated
traits (count: 62 )

Variant overlapped rSNPs/rCNVs (count:250 , 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	rs11815437	chr10:98667529-98667530	Weak transcription Strong transcription Enhancers	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
2	rs557100210	chr10:98667537-98667538	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
3	rs141803245	chr10:98667650-98667651	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
4	rs183017206	chr10:98667653-98667654	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
5	rs530498128	chr10:98667662-98667663	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
6	rs147224767	chr10:98667665-98667666	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
7	rs572862061	chr10:98667675-98667676	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
8	rs115144895	chr10:98667706-98667707	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
9	rs200920399	chr10:98667738-98667739	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
10	rs558365389	chr10:98667744-98667745	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
11	rs576654646	chr10:98667754-98667755	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
12	rs543986978	chr10:98667765-98667766	Weak transcription Strong transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
13	rs546204604	chr10:98667812-98667813	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
14	rs140576078	chr10:98667814-98667815	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
15	rs529907409	chr10:98667834-98667835	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
16	rs541822384	chr10:98667837-98667838	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
17	rs188356579	chr10:98667838-98667839	Weak transcription Strong transcription Genic enhancers Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
18	rs144210188	chr10:98667862-98667863	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs115860941	chr10:98667874-98667875	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
20	rs558337511	chr10:98667915-98667916	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
21	rs570843713	chr10:98668034-98668035	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
22	rs531960605	chr10:98668037-98668038	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
23	rs550372890	chr10:98668109-98668110	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
24	rs79336028	chr10:98668124-98668125	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
25	rs536116950	chr10:98668162-98668163	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
26	rs554161145	chr10:98668185-98668186	Weak transcription Strong transcription Genic enhancers Enhancers	n/a	n/a	Overlapped CNVs	n/a
27	rs566510716	chr10:98668274-98668275	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
28	rs191627294	chr10:98668278-98668279	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
29	rs183922871	chr10:98668285-98668286	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs576493596	chr10:98668298-98668299	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
31	rs564417636	chr10:98668409-98668410	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs370170387	chr10:98668419-98668420	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
33	rs530062128	chr10:98668426-98668427	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
34	rs35691585	chr10:98668480-98668481	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
35	rs555893345	chr10:98668482-98668483	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
36	rs397800170	chr10:98668490-98668491	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
37	rs574400426	chr10:98668514-98668515	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
38	rs373396501	chr10:98668533-98668534	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
39	rs560183565	chr10:98668534-98668535	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
40	rs540876684	chr10:98668535-98668536	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
41	rs527720840	chr10:98668546-98668547	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
42	rs188916221	chr10:98668551-98668552	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
43	rs564626036	chr10:98668561-98668562	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
44	rs531792919	chr10:98668567-98668568	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
45	rs566734286	chr10:98668574-98668575	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
46	rs568713710	chr10:98668597-98668598	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
47	rs11814029	chr10:98668617-98668618	Weak transcription Strong transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
48	rs192402652	chr10:98668618-98668619	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
49	rs183729208	chr10:98668621-98668622	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
50	rs368264100	chr10:98668622-98668623	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:62)

Disease	PMID	Source
Gastric cancer	17908304	CNVD
Chordoma	21602918	CNVD
Ewing''s sarcoma	21437220	CNVD
Glioblastoma multiforme	21080181	CNVD
Medulloblastoma	21979893	CNVD
Melanoma	18172304	CNVD
Pleomorphic xanthoastrocytoma	20730472	CNVD
Ewing''s sarcoma	17952124	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Acute lymphoblastic leukemia	20724749	CNVD
Autism	22495311	CNVD
Prostate cancer	18632612	CNVD
Cockayne syndrome	18421352	CNVD
Glioblastoma	16823260	CNVD
Medulloblastoma	16968546	CNVD
Neuroblastoma	17533364	CNVD
Squamous cell cancer	21044232	CNVD
Glioma	21971842	CNVD
Cancer	21637783	CNVD
Non-small cell lung cancer	21044232	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Colorectal cancer	20709793	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Liposarcoma	21253554	CNVD
Oligodendroglial tumors	17285580	CNVD
Lung cancer	18438408	CNVD
Medulloblastoma	16783165	CNVD
Breast cancer	21785460	CNVD
Acute myeloid leukemia	20729466	CNVD
Paraganglioma	17535989	CNVD
Gastrointestinal stromal cancer	17535989	CNVD
Pancreatic endocrine tumor	17639061	CNVD
Pulmonary chondroma	17535989	CNVD
Glioblastoma multiforme	17002787	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	17603634	CNVD
Glioblastoma multiforme	17387387	CNVD
Breast cancer	21364760	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Wilms tumour	21544195	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Urothelial carcinoma	21177765	CNVD
Prostate cancer	16573809	CNVD
Breast cancer	16608533	CNVD
Glioblastoma multiforme	22286061	CNVD
small cell lung cancer	20016488	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Lung cancer	16773561	CNVD
Colorectal cancer	16912164	CNVD
Myelofibrosis	22110671	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Autosomal dominant partial epilepsy	18472482	CNVD
Breast cancer	16397240	CNVD
Myxofibrosarcoma	16751306	CNVD
Breast cancer	17393978	CNVD
Ovarian cancer	21720365	CNVD
Recurrent pregnancy loss	19789632	CNVD
Breast cancer	22522925	CNVD

Chromatin state (count:280 , 50 per page) page: 1 2 3 4 5 6

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98611000-98713000	Weak transcription	Aorta	Aorta
2	chr10:98624800-98696000	Weak transcription	K562	blood
3	chr10:98633600-98670000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr10:98636800-98683400	Weak transcription	Osteobl	bone
5	chr10:98637400-98708800	Weak transcription	NH-A	brain
6	chr10:98639800-98714600	Weak transcription	Esophagus	oesophagus
7	chr10:98640600-98714600	Weak transcription	Hela-S3	cervix
8	chr10:98644800-98669800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr10:98644800-98674600	Weak transcription	Spleen	Spleen
10	chr10:98644800-98681400	Weak transcription	Right Ventricle	heart
11	chr10:98645400-98678000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr10:98649400-98672200	Weak transcription	HSMM	muscle
13	chr10:98650200-98673400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr10:98650200-98674600	Weak transcription	Thymus	Thymus
15	chr10:98650200-98708800	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr10:98651800-98667800	Weak transcription	Fetal Stomach	stomach
17	chr10:98652000-98673600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr10:98652400-98672200	Weak transcription	Fetal Thymus	thymus
19	chr10:98652600-98667600	Weak transcription	Dnd41	blood
20	chr10:98652600-98669000	Weak transcription	Primary B cells from cord blood	blood
21	chr10:98652600-98671200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr10:98652600-98673600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr10:98652600-98674800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr10:98652800-98667600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr10:98652800-98667600	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr10:98653000-98667600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr10:98653400-98675200	Weak transcription	Primary hematopoietic stem cells	blood
28	chr10:98653400-98714200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr10:98654200-98675400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr10:98655800-98667800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr10:98656000-98675400	Weak transcription	Pancreas	Pancrea
32	chr10:98657200-98672600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr10:98657400-98673200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr10:98657400-98705800	Weak transcription	NHDF-Ad	bronchial
35	chr10:98658400-98668800	Weak transcription	Primary B cells from peripheral blood	blood
36	chr10:98659000-98672400	Weak transcription	Primary T cells from cord blood	blood
37	chr10:98659000-98714600	Weak transcription	Rectal Smooth Muscle	rectum
38	chr10:98661600-98669000	Weak transcription	Fetal Lung	lung
39	chr10:98661600-98675400	Weak transcription	Fetal Muscle Leg	muscle
40	chr10:98661800-98667800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr10:98661800-98678000	Weak transcription	Right Atrium	heart
42	chr10:98661800-98680600	Weak transcription	Left Ventricle	heart
43	chr10:98662600-98667800	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr10:98662800-98670200	Weak transcription	Liver	Liver
45	chr10:98662800-98671000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr10:98662800-98687600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr10:98663000-98674600	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr10:98663000-98688000	Weak transcription	Adipose Nuclei	Adipose
49	chr10:98663000-98695000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr10:98663000-98720400	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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