Variant report

Variant	esv1819260
Chromosome Location	chr19:23464386-23471341
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:361)
CpG islands
(count:0)
Chromatin interactive
region (count:2)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:361 , 50 per page) page: 1 2 3 4 5 6 7 8

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ARID3A	chr19:23466709-23467067	HepG2	liver:	n/a	n/a
2	ARID3A	chr19:23464504-23464974	HepG2	liver:	n/a	n/a
3	BHLHE40	chr19:23465524-23465669	GM12878	blood:	n/a	n/a
4	CEBPB	chr19:23464853-23465097	HepG2	liver:	n/a	n/a
5	CTCF	chr19:23466860-23467010	GM12872	blood:	n/a	n/a
6	CTCF	chr19:23466816-23467032	LNCaP	prostate:	n/a	n/a
7	CTCF	chr19:23466716-23467109	GM12878	blood:	n/a	n/a
8	CTCF	chr19:23469480-23469630	NHEK	skin:	n/a	n/a
9	CTCF	chr19:23470520-23470670	GM12872	blood:	n/a	n/a
10	CTCF	chr19:23469451-23469564	GM19240	blood:	n/a	n/a
11	CTCF	chr19:23466900-23467050	HAc	cerebellar:	n/a	n/a
12	CTCF	chr19:23469460-23469610	GM12878	blood:	n/a	n/a
13	CTCF	chr19:23469400-23469550	GM12864	blood:	n/a	n/a
14	CTCF	chr19:23466880-23467030	GM12874	blood:	n/a	n/a
15	CTCF	chr19:23470620-23470770	BE2_C	brain:	n/a	n/a
16	CTCF	chr19:23469425-23469557	Gliobla	brain:	n/a	n/a
17	CTCF	chr19:23466820-23466970	HRE	kidney:	n/a	n/a
18	CTCF	chr19:23470460-23470610	HUVEC	blood vessel:	n/a	n/a
19	CTCF	chr19:23466888-23466954	GM13976	blood:	n/a	n/a
20	CTCF	chr19:23469460-23469610	GM12869	blood:	n/a	n/a
21	CTCF	chr19:23469340-23469490	AG09309	skin:	n/a	n/a
22	CTCF	chr19:23469440-23469590	HepG2	liver:	n/a	n/a
23	CTCF	chr19:23466860-23467010	HPF	lung:	n/a	n/a
24	CTCF	chr19:23466860-23467010	HA-sp	spinal cord:	n/a	n/a
25	CTCF	chr19:23469400-23469550	HRPEpiC	eye:	n/a	n/a
26	CTCF	chr19:23469420-23469570	HepG2	liver:	n/a	n/a
27	CTCF	chr19:23469260-23469410	RPTEC	kidney:	n/a	n/a
28	CTCF	chr19:23466840-23466990	RPTEC	kidney:	n/a	n/a
29	CTCF	chr19:23469431-23469548	MCF-7	breast:	n/a	n/a
30	CTCF	chr19:23469460-23469610	GM12864	blood:	n/a	n/a
31	CTCF	chr19:23469440-23469590	GM12864	blood:	n/a	n/a
32	CTCF	chr19:23466789-23467056	Gliobla	brain:	n/a	n/a
33	CTCF	chr19:23466900-23467050	AG09319	gingival:	n/a	n/a
34	CTCF	chr19:23466760-23467121	IMR90	lung:	n/a	n/a
35	CTCF	chr19:23469440-23469590	GM06990	blood:	n/a	n/a
36	CTCF	chr19:23469380-23469530	GM12865	blood:	n/a	n/a
37	CTCF	chr19:23466900-23467050	HCPEpiC	choroid plexus:	n/a	n/a
38	CTCF	chr19:23469360-23469510	SK-N-SH_RA	brain:	n/a	n/a
39	CTCF	chr19:23466880-23467030	HBMEC	blood vessel:	n/a	n/a
40	CTCF	chr19:23466880-23467030	Caco-2	colon:	n/a	n/a
41	CTCF	chr19:23466845-23467005	Hela-S3	cervix:	n/a	n/a
42	CTCF	chr19:23466795-23467094	Spleen_OC	spleen:	n/a	n/a
43	CTCF	chr19:23466860-23467010	NHEK	skin:	n/a	n/a
44	CTCF	chr19:23469340-23469490	HEEpiC	esophagus:	n/a	n/a
45	CTCF	chr19:23469390-23469604	H1-hESC	embryonic stem cell:	n/a	n/a
46	CTCF	chr19:23466860-23467010	HMF	breast:	n/a	n/a
47	CTCF	chr19:23469420-23469570	GM12870	blood:	n/a	n/a
48	CTCF	chr19:23466840-23466990	HEK293	kidney:	n/a	n/a
49	CTCF	chr19:23469360-23469510	GM12872	blood:	n/a	n/a
50	CTCF	chr19:23469424-23469558	MCF-7	breast:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:56735011..56736549-chr19:23464937..23466566,2	MCF-7	breast:
2	chr19:23456110..23458063-chr19:23465875..23467770,2	MCF-7	breast:

No data

Variant related genes	Relation type
VN1R91P	TF binding region
VN1R90P	TF binding region
ENSG00000213971	chromatin interactions

Extended variants
information (count: 298 )
Associated
traits (count: 41 )

Variant overlapped rSNPs/rCNVs (count:298 , 50 per page) page: 1 2 3 4 5 6

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs190063318	chr19:23464406-23464407	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
2	rs560826370	chr19:23464436-23464437	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
3	rs527713911	chr19:23464444-23464445	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
4	rs550187590	chr19:23464462-23464463	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
5	rs552539827	chr19:23464518-23464519	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
6	rs570897054	chr19:23464546-23464547	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
7	rs149542978	chr19:23464568-23464569	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
8	rs388346	chr19:23464613-23464614	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
9	rs370642	chr19:23464630-23464631	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
10	rs144122243	chr19:23464631-23464632	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs554936586	chr19:23464660-23464661	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs566735766	chr19:23464661-23464662	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
13	rs533596888	chr19:23464704-23464705	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
14	rs147766062	chr19:23464731-23464732	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs558512794	chr19:23464737-23464738	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
16	rs576871446	chr19:23464748-23464749	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
17	rs386995	chr19:23464754-23464755	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
18	rs73016364	chr19:23464769-23464770	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
19	rs114602019	chr19:23464772-23464773	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
20	rs371417953	chr19:23464813-23464814	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
21	rs560670542	chr19:23464814-23464815	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
22	rs201660283	chr19:23464843-23464844	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
23	rs79354573	chr19:23464844-23464845	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
24	rs35751642	chr19:23464845-23464846	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
25	rs72540870	chr19:23464852-23464853	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
26	rs397695643	chr19:23464853-23464854	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
27	rs372289469	chr19:23464854-23464855	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
28	rs375923698	chr19:23464856-23464857	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
29	rs454641	chr19:23464861-23464862	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
30	rs545888309	chr19:23464940-23464941	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
31	rs1650857	chr19:23464969-23464970	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
32	rs556499236	chr19:23464986-23464987	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
33	rs182321184	chr19:23465010-23465011	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs537994469	chr19:23465045-23465046	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs568550197	chr19:23465058-23465059	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs113610669	chr19:23465064-23465065	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs529941686	chr19:23465115-23465116	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs373319877	chr19:23465122-23465123	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs1658217	chr19:23465137-23465138	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
40	rs1658218	chr19:23465143-23465144	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
41	rs185640921	chr19:23465155-23465156	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs112504991	chr19:23465158-23465159	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs111860408	chr19:23465165-23465166	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs537434180	chr19:23465186-23465187	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs28550952	chr19:23465240-23465241	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
46	rs574192822	chr19:23465265-23465266	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs144023455	chr19:23465267-23465268	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs554302968	chr19:23465279-23465280	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs376497518	chr19:23465297-23465298	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs541639168	chr19:23465372-23465373	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:41)

Disease	PMID	Source
Medulloblastoma	16783165	CNVD
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
Non-syndromic sensorineural hearing loss	17122850	CNVD
small cell lung cancer	20016488	CNVD
Breast cancer	22522925	CNVD

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:23457600-23470400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr19:23458600-23464400	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr19:23463400-23464800	Enhancers	HepG2	liver
4	chr19:23464200-23464400	Enhancers	Primary T cells fromperipheralblood	blood
5	chr19:23464200-23466000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr19:23464200-23467000	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr19:23464400-23465200	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr19:23464400-23467000	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr19:23464600-23466000	Enhancers	Primary T cells from cord blood	blood
10	chr19:23464800-23465000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr19:23464800-23465000	Flanking Active TSS	HepG2	liver
12	chr19:23465000-23465200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr19:23465000-23465400	Enhancers	HepG2	liver
14	chr19:23465200-23466000	Enhancers	Dnd41	blood
15	chr19:23465200-23466200	Enhancers	Primary T cells fromperipheralblood	blood
16	chr19:23465200-23466600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr19:23465400-23465600	Flanking Active TSS	HepG2	liver
18	chr19:23465600-23465800	Enhancers	HepG2	liver
19	chr19:23465800-23466000	Flanking Active TSS	HepG2	liver
20	chr19:23466000-23466800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr19:23466000-23467000	Enhancers	HepG2	liver
22	chr19:23466200-23466600	Weak transcription	Primary T cells fromperipheralblood	blood
23	chr19:23466400-23470600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr19:23466600-23467000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr19:23466600-23467200	Enhancers	Primary T cells fromperipheralblood	blood
26	chr19:23466800-23467000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
27	chr19:23467400-23468600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr19:23468600-23492600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr19:23469800-23470800	ZNF genes & repeats	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr19:23470000-23470800	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links