Variant report

Variant	nsv6010
Chromosome Location	chr10:19752318-19796695
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:187)
CpG islands
(count:61)
Chromatin interactive
region (count:8)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:187 , 50 per page) page: 1 2 3 4

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ATF1	chr10:19792017-19792188	K562	blood:	n/a	n/a
2	BACH1	chr10:19777970-19778068	H1-hESC	embryonic stem cell:	n/a	n/a
3	CEBPB	chr10:19758531-19758806	IMR90	lung:	n/a	chr10:19758672-19758683
4	CEBPB	chr10:19781986-19782089	K562	blood:	n/a	n/a
5	CEBPB	chr10:19781460-19782153	HepG2	liver:	n/a	chr10:19781628-19781639
6	CEBPB	chr10:19787873-19788271	MCF-7	breast:	n/a	chr10:19788093-19788106 chr10:19788094-19788105 chr10:19788093-19788106 chr10:19788093-19788104 chr10:19788093-19788106
7	CEBPB	chr10:19787872-19788258	MCF-7	breast:	n/a	chr10:19788093-19788106 chr10:19788094-19788105 chr10:19788093-19788106 chr10:19788093-19788104 chr10:19788093-19788106
8	CEBPB	chr10:19758519-19758826	HepG2	liver:	n/a	chr10:19758672-19758683
9	CEBPB	chr10:19770776-19771101	HepG2	liver:	n/a	n/a
10	CEBPB	chr10:19789951-19790296	MCF-7	breast:	n/a	n/a
11	CEBPB	chr10:19781492-19782070	IMR90	lung:	n/a	chr10:19781628-19781639
12	CEBPB	chr10:19787923-19788214	A549	lung:	n/a	chr10:19788093-19788106 chr10:19788094-19788105 chr10:19788093-19788106 chr10:19788093-19788104 chr10:19788093-19788106
13	CEBPB	chr10:19787930-19788238	HepG2	liver:	n/a	chr10:19788093-19788106 chr10:19788094-19788105 chr10:19788093-19788106 chr10:19788093-19788104 chr10:19788093-19788106
14	CEBPB	chr10:19787938-19788228	IMR90	lung:	n/a	chr10:19788093-19788106 chr10:19788094-19788105 chr10:19788093-19788106 chr10:19788093-19788104 chr10:19788093-19788106
15	CHD2	chr10:19777819-19778173	H1-hESC	embryonic stem cell:	n/a	n/a
16	CTCF	chr10:19777924-19777992	GM12892	blood:	n/a	n/a
17	CTCF	chr10:19777826-19778050	HepG2	liver:	n/a	n/a
18	CTCF	chr10:19754051-19754081	GM10266	blood:	n/a	n/a
19	CTCF	chr10:19777900-19778050	HepG2	liver:	n/a	n/a
20	CTCF	chr10:19777840-19777990	HPAF	blood vessel:	n/a	n/a
21	CTCF	chr10:19777860-19778010	HCM	heart:	n/a	n/a
22	CTCF	chr10:19783020-19783170	GM12872	blood:	n/a	n/a
23	CTCF	chr10:19794597-19794635	GM10266	blood:	n/a	n/a
24	CTCF	chr10:19777880-19778030	HCPEpiC	choroid plexus:	n/a	n/a
25	CTCF	chr10:19777900-19778050	AG04450	lung:	n/a	n/a
26	CTCF	chr10:19782940-19783090	GM12874	blood:	n/a	n/a
27	CTCF	chr10:19777820-19777970	NHLF	lung:	n/a	n/a
28	CTCF	chr10:19777907-19778037	H1-hESC	embryonic stem cell:	n/a	n/a
29	CTCF	chr10:19777903-19778017	Kidney_OC	kidney:	n/a	n/a
30	CTCF	chr10:19778080-19778230	HRE	kidney:	n/a	n/a
31	CTCF	chr10:19777766-19778130	H1-hESC	embryonic stem cell:	n/a	n/a
32	CTCF	chr10:19782999-19783116	HepG2	liver:	n/a	n/a
33	CTCF	chr10:19777840-19777990	HAc	cerebellar:	n/a	n/a
34	CTCF	chr10:19785270-19785345	Kidney_OC	kidney:	n/a	n/a
35	CTCF	chr10:19782998-19783125	H1-hESC	embryonic stem cell:	n/a	n/a
36	CTCF	chr10:19782980-19783130	GM12872	blood:	n/a	n/a
37	CTCF	chr10:19777900-19778050	HCM	heart:	n/a	n/a
38	CTCF	chr10:19777840-19777990	AG04450	lung:	n/a	n/a
39	CTCF	chr10:19756593-19756618	GM13976	blood:	n/a	n/a
40	CTCF	chr10:19777800-19777950	HVMF	connective:	n/a	n/a
41	CTCF	chr10:19777840-19777990	HVMF	connective:	n/a	n/a
42	CTCF	chr10:19782915-19783244	HepG2	liver:	n/a	n/a
43	CTCF	chr10:19777928-19777965	HepG2	liver:	n/a	n/a
44	CTCF	chr10:19777860-19778010	HMF	breast:	n/a	n/a
45	CTCF	chr10:19777860-19778010	HCFaa	heart:	n/a	n/a
46	CTCF	chr10:19783026-19783106	MCF-7	breast:	n/a	n/a
47	CTCF	chr10:19777900-19778050	HRE	kidney:	n/a	n/a
48	CTCF	chr10:19777740-19777890	HFF-Myc	foreskin:	n/a	n/a
49	CTCF	chr10:19783036-19783094	NHEK	skin:	n/a	n/a
50	CTCF	chr10:19777880-19778030	HPF	lung:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr10:19778008-19778058	HMEC	breast:	n/a
2	chr10:19778008-19778058	PrEC	prostate:	n/a
3	chr10:19778008-19778058	ECC-1	luminal epithelium:	n/a
4	chr10:19778008-19778058	NH-A	brain:	n/a
5	chr10:19778008-19778058	HEK293	kidney:	embryo
6	chr10:19778008-19778058	HRCEpiC	kidney:	n/a
7	chr10:19778008-19778058	LNCaP	prostate:	n/a
8	chr10:19778008-19778058	GM12891	blood:	n/a
9	chr10:19778008-19778058	GM19239	blood:	n/a
10	chr10:19778008-19778058	BJ	skin:	n/a
11	chr10:19778008-19778058	HRPEpiC	eye:	n/a
12	chr10:19778008-19778058	HCM	heart:	n/a
13	chr10:19778008-19778058	AG09319	gingival:	n/a
14	chr10:19778008-19778058	GM06990	blood:	n/a
15	chr10:19778008-19778058	HRE	kidney:	n/a
16	chr10:19778008-19778058	U87	brain:	n/a
17	chr10:19778008-19778058	Jurkat	blood:	n/a
18	chr10:19778008-19778058	AG09309	skin:	n/a
19	chr10:19778008-19778058	AoSMC	blood vessel:	n/a
20	chr10:19778008-19778058	ovcar-3	ovarian:	n/a
21	chr10:19778008-19778058	SAEC	small airway:	n/a
22	chr10:19778008-19778058	HCPEpiC	choroid plexus:	n/a
23	chr10:19778008-19778058	A549	lung:	n/a
24	chr10:19778008-19778058	NB4	blood:	n/a
25	chr10:19778008-19778058	HL-60	blood:	n/a
26	chr10:19778008-19778058	NT2-D1	testis:	n/a
27	chr10:19778008-19778058	RPTEC	kidney:	n/a
28	chr10:19778008-19778058	PFSK-1	brain:	n/a
29	chr10:19778008-19778058	NHDF-neo	bronchial:	n/a
30	chr10:19778008-19778058	HUVEC	blood vessel:	n/a
31	chr10:19778008-19778058	AG04449	skin:	fetal
32	chr10:19778008-19778058	NHBE	bronchial:	n/a
33	chr10:19778008-19778058	AG04450	lung:	fetal
34	chr10:19778008-19778058	Caco-2	colon:	n/a
35	chr10:19778008-19778058	HCF	heart:	n/a
36	chr10:19778008-19778058	BE2_C	brain:	n/a
37	chr10:19778008-19778058	PANC-1	pancreas:	n/a
38	chr10:19778008-19778058	T-47D	breast:	n/a
39	chr10:19778008-19778058	HCT-116	colon:	n/a
40	chr10:19778008-19778058	MCF-7	breast:	n/a
41	chr10:19778008-19778058	HIPEpiC	eye:	n/a
42	chr10:19778008-19778058	HPAEpiC	pulmonary alveolar:	n/a
43	chr10:19778008-19778058	SKMC	muscle:	n/a
44	chr10:19778008-19778058	SK-N-MC	brain:	n/a
45	chr10:19778008-19778058	Hepatocyte	liver:	n/a
46	chr10:19778008-19778058	HepG2	liver:	n/a
47	chr10:19778008-19778058	GM12892	blood:	n/a
48	chr10:19778008-19778058	ProgFib	skin:	n/a
49	chr10:19778008-19778058	H1-hESC	embryonic stem cell:	embryo
50	chr10:19778008-19778058	GM12878	blood:	n/a

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:19785625..19787709-chr10:19788365..19791040,2	MCF-7	breast:
2	chr10:19776078..19778713-chr10:19790449..19792992,2	K562	blood:
3	chr10:19781369..19782958-chr10:19786296..19789278,2	MCF-7	breast:
4	chr10:19784572..19786146-chr10:19787649..19789922,2	MCF-7	breast:
5	chr10:19784572..19786146-chr10:19787649..19789922,2	MCF-7	breast:
6	chr10:19781369..19782958-chr10:19786296..19789278,2	MCF-7	breast:
7	chr10:19785625..19787709-chr10:19788365..19791040,2	MCF-7	breast:
8	chr10:19769588..19771872-chr10:19775105..19777621,2	K562	blood:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PLXDC2-6	chr10:19778030-19778329	NONHSAT011661
2	lnc-NSUN6-7	chr10:19780001-19780228	NONHSAT011662

No data

Variant related genes	Relation type
HMGN1P20	TF binding region
MALRD1	TF binding region
ENSG00000236960	TF binding region
HMGN1P20	CpG island
MALRD1	CpG island
ENSG00000236960	CpG island
ENSG00000239539	chromatin interactions
ENSG00000204740	chromatin interactions

Extended variants
information (count: 2032 )
Associated
traits (count: 43 )

Variant overlapped rSNPs/rCNVs (count:2032 , 50 per page) page: 1 2 3 4 5 6 7 ... 41

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs398054173	chr10:19752328-19752329	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
2	rs139507317	chr10:19752337-19752338	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs4748582	chr10:19752357-19752358	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
4	rs4748583	chr10:19752365-19752366	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
5	rs531708356	chr10:19752374-19752375	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs181338762	chr10:19752392-19752393	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs184788385	chr10:19752423-19752424	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs373807741	chr10:19752461-19752462	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
9	rs535132181	chr10:19752467-19752468	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
10	rs553751647	chr10:19752471-19752472	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs571909656	chr10:19752472-19752473	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs377297725	chr10:19752483-19752484	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
13	rs374737454	chr10:19752499-19752500	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
14	rs367632746	chr10:19752505-19752506	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs371898644	chr10:19752507-19752508	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
16	rs375831306	chr10:19752509-19752510	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
17	rs33985634	chr10:19752511-19752512	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
18	rs76921836	chr10:19752513-19752514	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
19	rs80100808	chr10:19752515-19752516	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs79100565	chr10:19752517-19752518	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
21	rs140574713	chr10:19752519-19752520	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
22	rs113265655	chr10:19752521-19752522	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs188269462	chr10:19752545-19752546	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs180785856	chr10:19752606-19752607	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs560550687	chr10:19752639-19752640	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs186428173	chr10:19752641-19752642	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs546523630	chr10:19752650-19752651	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs190879746	chr10:19752662-19752663	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
29	rs182226514	chr10:19752675-19752676	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs186812709	chr10:19752677-19752678	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs568348354	chr10:19752713-19752714	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs201756063	chr10:19752715-19752716	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
33	rs117640559	chr10:19752718-19752719	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs547133387	chr10:19752734-19752735	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs565671024	chr10:19752764-19752765	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs116763919	chr10:19752787-19752788	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs10764022	chr10:19752794-19752795	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
38	rs569601035	chr10:19752799-19752800	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs7070228	chr10:19752817-19752818	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
40	rs556280464	chr10:19752835-19752836	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs191718248	chr10:19752837-19752838	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs369404365	chr10:19752842-19752843	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs553930295	chr10:19752889-19752890	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs565987768	chr10:19752898-19752899	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs572451312	chr10:19752937-19752938	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs546202833	chr10:19752953-19752954	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs4748584	chr10:19752960-19752961	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
48	rs532065469	chr10:19753035-19753036	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs10764023	chr10:19753117-19753118	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
50	rs562315392	chr10:19753137-19753138	Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:43)

Disease	PMID	Source
Medulloblastoma	16783165	CNVD
Breast cancer	17133270	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Breast cancer	17603634	CNVD
Endometrial cancer	22040021	CNVD
Glioblastoma multiforme	21080181	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Phyllodes tumor	17334353	CNVD
Acute lymphoblastic leukemia	17690704	CNVD
Pancreatic endocrine tumor	17639061	CNVD
Gastric cancer	17908304	CNVD
Chordoma	21602918	CNVD
Ewing''s sarcoma	21437220	CNVD
Medulloblastoma	21979893	CNVD
Melanoma	18172304	CNVD
Pleomorphic xanthoastrocytoma	20730472	CNVD
Lung cancer	18438408	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Ewing''s sarcoma	17952124	CNVD
Oral cancer	21386901	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Breast cancer	21858162	CNVD
Acute lymphoblastic leukemia	20724749	CNVD
Autism	22495311	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Intracranial aneurysm	16715129	CNVD
Cutaneous T-cell lymphoma	21881587	CNVD
Myelofibrosis	22110671	CNVD
Multiple myeloma	16616336	CNVD
T-cell lymphomas	19863542	CNVD
Esophageal cancer	21851588	CNVD
small cell lung cancer	20016488	CNVD
Epilepsy	22083797	CNVD
Olfactory neuroblastoma	18408657	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Breast cancer	21364760	CNVD
Ovarian clear cell carcinoma	21343371	CNVD
Non-syndromic sensorineural hearing loss	17122850	CNVD
Non-syndromic sensorineural hearing loss	22037309	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD

Chromatin state (count:208 , 50 per page) page: 1 2 3 4 5

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:19740000-19781200	Weak transcription	Duodenum Mucosa	Duodenum
2	chr10:19750800-19754400	Weak transcription	Fetal Intestine Small	intestine
3	chr10:19751400-19777600	Weak transcription	Fetal Intestine Large	intestine
4	chr10:19754400-19754800	Strong transcription	Fetal Intestine Small	intestine
5	chr10:19754800-19755800	Weak transcription	Fetal Intestine Small	intestine
6	chr10:19755800-19756200	Strong transcription	Fetal Intestine Small	intestine
7	chr10:19756200-19777600	Weak transcription	Fetal Intestine Small	intestine
8	chr10:19767200-19767400	Enhancers	Pancreatic Islets	Pancreatic Islet
9	chr10:19768000-19768200	Enhancers	Pancreatic Islets	Pancreatic Islet
10	chr10:19768800-19769000	Enhancers	Psoas Muscle	Psoas
11	chr10:19768800-19769600	Enhancers	Aorta	Aorta
12	chr10:19769600-19769800	Enhancers	Psoas Muscle	Psoas
13	chr10:19777200-19777400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr10:19777200-19777400	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr10:19777200-19777400	Enhancers	Thymus	Thymus
16	chr10:19777200-19778000	Enhancers	Fetal Thymus	thymus
17	chr10:19777200-19778400	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr10:19777400-19777600	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr10:19777400-19777800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr10:19777400-19777800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr10:19777400-19777800	Enhancers	Muscle Satellite Cultured Cells	--
22	chr10:19777400-19778200	Active TSS	ES-I3 Cell Line	embryonic stem cell
23	chr10:19777400-19778200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr10:19777400-19778400	Active TSS	Breast Myoepithelial Primary Cells	Breast
25	chr10:19777400-19778400	Active TSS	Thymus	Thymus
26	chr10:19777400-19778600	Active TSS	Primary hematopoietic stem cells	blood
27	chr10:19777400-19778800	Enhancers	H1 Cell Line	embryonic stem cell
28	chr10:19777400-19778800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr10:19777600-19777800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
30	chr10:19777600-19777800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
31	chr10:19777600-19777800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
32	chr10:19777600-19777800	Active TSS	Fetal Intestine Small	intestine
33	chr10:19777600-19778200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr10:19777600-19778200	Active TSS	Brain Anterior Caudate	brain
35	chr10:19777600-19778200	Active TSS	Fetal Adrenal Gland	Adrenal Gland
36	chr10:19777600-19778200	Active TSS	Fetal Brain Female	brain
37	chr10:19777600-19778200	Active TSS	Fetal Heart	heart
38	chr10:19777600-19778200	Active TSS	Fetal Lung	lung
39	chr10:19777600-19778200	Active TSS	NHLF	lung
40	chr10:19777600-19778200	Active TSS	Osteobl	bone
41	chr10:19777600-19778400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr10:19777600-19778400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr10:19777600-19778400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr10:19777600-19778400	Active TSS	Adipose Nuclei	Adipose
45	chr10:19777600-19778400	Active TSS	Colon Smooth Muscle	Colon
46	chr10:19777600-19778400	Active TSS	Fetal Intestine Large	intestine
47	chr10:19777600-19778400	Active TSS	Fetal Kidney	kidney
48	chr10:19777600-19778400	Active TSS	Pancreatic Islets	Pancreatic Islet
49	chr10:19777600-19778400	Active TSS	Monocytes-CD14+_RO01746	blood
50	chr10:19777600-19778600	Active TSS	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links