Variant report

Variant	esv19690
Chromosome Location	chr3:56607723-56621531
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	chr3:56590586..56593245-chr3:56606060..56608727,2	K562	blood:
2	chr3:56619803..56621869-chr3:56626645..56628418,2	K562	blood:

Variant related genes	Relation type
ENSG00000180376	chromatin interactions

Extended variants
information (count: 615 )
Associated
traits (count: 79 )

Variant overlapped rSNPs/rCNVs (count:615 , 50 per page) page: 1 2 3 4 5 6 7 ... 13

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs544494695	chr3:56607730-56607731	Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
2	rs527458272	chr3:56607733-56607734	Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
3	rs151074616	chr3:56607750-56607751	Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
4	rs36169681	chr3:56607754-56607755	Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
5	rs374000546	chr3:56607763-56607764	Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
6	rs556863019	chr3:56607851-56607852	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
7	rs538348304	chr3:56607866-56607867	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
8	rs533089880	chr3:56607868-56607869	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
9	rs375176860	chr3:56607869-56607870	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
10	rs72573619	chr3:56607870-56607871	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
11	rs397791705	chr3:56607871-56607872	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
12	rs536012608	chr3:56607925-56607926	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
13	rs183502058	chr3:56607928-56607929	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
14	rs150280972	chr3:56607949-56607950	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
15	rs34535613	chr3:56607950-56607951	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
16	rs527646889	chr3:56607952-56607953	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
17	rs112939736	chr3:56607956-56607957	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
18	rs560230234	chr3:56607967-56607968	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
19	rs28493474	chr3:56607969-56607970	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
20	rs73081836	chr3:56608020-56608021	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
21	rs569077040	chr3:56608024-56608025	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
22	rs572038616	chr3:56608025-56608026	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
23	rs13089169	chr3:56608033-56608034	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
24	rs551319047	chr3:56608055-56608056	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
25	rs186412517	chr3:56608074-56608075	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
26	rs539587418	chr3:56608093-56608094	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
27	rs372187221	chr3:56608105-56608106	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
28	rs557588315	chr3:56608152-56608153	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
29	rs572857229	chr3:56608158-56608159	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
30	rs535503884	chr3:56608167-56608168	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
31	rs190033584	chr3:56608188-56608189	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
32	rs9873754	chr3:56608240-56608241	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
33	rs182314491	chr3:56608248-56608249	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
34	rs564357343	chr3:56608261-56608262	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
35	rs372658562	chr3:56608294-56608295	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
36	rs201024139	chr3:56608327-56608328	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
37	rs9836539	chr3:56608345-56608346	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
38	rs13090343	chr3:56608369-56608370	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
39	rs376526543	chr3:56608389-56608390	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
40	rs386396713	chr3:56608390-56608391	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
41	rs78283952	chr3:56608403-56608404	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
42	rs386396714	chr3:56608404-56608405	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
43	rs59285810	chr3:56608405-56608406	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
44	rs79288055	chr3:56608406-56608407	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
45	rs374436807	chr3:56608508-56608509	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
46	rs577802524	chr3:56608518-56608519	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
47	rs540815933	chr3:56608549-56608550	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
48	rs369178004	chr3:56608609-56608610	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
49	rs145423463	chr3:56608692-56608693	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
50	rs559532682	chr3:56608706-56608707	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:79)

Disease	PMID	Source
Melanoma	18172304	CNVD
Cervical cancer	21062161	CNVD
Hirschsprung''s Disease	21712996	CNVD
Acute myeloid leukemia	20729466	CNVD
Glioblastoma multiforme	21080181	CNVD
head and neck squamous cell carcinoma	17671120	CNVD
Insulin resistance	16721378	CNVD
Neuroblastoma	18664255	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Multiple myeloma	17077331	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Ewing''s sarcoma	21437220	CNVD
Neuroblastoma	21484798	CNVD
Non-small cell lung cancer	21044232	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Oral cancer	19627613	CNVD
Renal cell carcinoma	19461508	CNVD
Epithelial cancer	22065749	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Acute myeloid leukemia	16864856	CNVD
Liposarcoma	21253554	CNVD
Basal cell lymphoma	21115979	CNVD
Endometrial cancer	22040021	CNVD
Pancreatic endocrine tumor	20981439	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	17387387	CNVD
Oral cancer	21386901	CNVD
Cutaneous squamous cell carcinomas	19131950	CNVD
Medulloblastoma	21979893	CNVD
Basal cell lymphoma	17053054	CNVD
Esophageal cancer	21851588	CNVD
Uveal melanoma	21693616	CNVD
Retinoblastoma	21504564	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Renal cell carcinoma	21668985	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Lung cancer	18438408	CNVD
Intellectual disability	22102821	CNVD
Breast cancer	17603634	CNVD
Esophageal cancer	20955586	CNVD
Myofibroblastic sarcoma	19369631	CNVD
Breast cancer	17133270	CNVD
Uveal melanoma	20484589	CNVD
Autism	22495311	CNVD
Acute myeloid leukemia	21251322	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
Malignant mesothelioma	18160781	CNVD
Pleural malignant mesothelioma	18160781	CNVD
Non-muscle invasive bladder neoplasm	19445696	CNVD
Breast cancer	21785460	CNVD
Neuroblastoma	17327916	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Squamous cell cancer	20885788	CNVD
Breast cancer	16608533	CNVD
Prostate cancer	21965145	CNVD
Cancer	21129771	CNVD
Congenital diaphragmatic hernia	21085971	CNVD
Renal cell carcinoma	18765545	CNVD
small cell lung cancer	20016488	CNVD
Prostate cancer	18632612	CNVD
Cancer	20164919	CNVD
Myelofibrosis	22110671	CNVD
Urothelial cell carcinoma	18451213	CNVD
Breast cancer	19490591	CNVD
Autism	18414403	CNVD
Myeloproliferative neoplasm	20015882	CNVD
Non-small cell lung cancer	20864512	CNVD
Metastatic melanoma	17975146	CNVD
Breast cancer	22522925	CNVD

Chromatin state (count:397 , 50 per page) page: 1 2 3 4 5 6 7 8

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56592000-56615600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:56592200-56609400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:56592400-56615600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:56592400-56639800	Weak transcription	Right Ventricle	heart
5	chr3:56592400-56644800	Weak transcription	Small Intestine	intestine
6	chr3:56592800-56610200	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:56592800-56644600	Weak transcription	Fetal Heart	heart
8	chr3:56593000-56607800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr3:56593000-56610000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:56593200-56608000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
11	chr3:56593200-56609000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
12	chr3:56593200-56609600	Strong transcription	HUES64 Cell Line	embryonic stem cell
13	chr3:56593200-56616400	Weak transcription	Colon Smooth Muscle	Colon
14	chr3:56593400-56608600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr3:56593600-56609800	Strong transcription	Primary T cells fromperipheralblood	blood
16	chr3:56594200-56608000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
17	chr3:56594200-56610200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr3:56594400-56609400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr3:56594800-56609000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr3:56596000-56608400	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr3:56597200-56609200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr3:56597400-56609400	Strong transcription	HUES6 Cell Line	embryonic stem cell
23	chr3:56597400-56610000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr3:56597600-56608000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr3:56598000-56607800	Strong transcription	Primary T helper cells PMA-I stimulated	--
26	chr3:56598000-56609200	Strong transcription	Fetal Thymus	thymus
27	chr3:56598000-56609800	Strong transcription	Primary T cells from cord blood	blood
28	chr3:56598600-56608400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr3:56598600-56609600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
30	chr3:56599800-56607800	Strong transcription	Fetal Lung	lung
31	chr3:56599800-56608000	Strong transcription	Liver	Liver
32	chr3:56600000-56607800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr3:56600000-56607800	Strong transcription	Fetal Muscle Trunk	muscle
34	chr3:56600000-56607800	Strong transcription	Fetal Muscle Leg	muscle
35	chr3:56600000-56607800	Strong transcription	Monocytes-CD14+_RO01746	blood
36	chr3:56600000-56608000	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr3:56600000-56608200	Strong transcription	Stomach Smooth Muscle	stomach
38	chr3:56600000-56608600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr3:56600000-56608800	Strong transcription	Cortex derived primary cultured neurospheres	brain
40	chr3:56600000-56609000	Strong transcription	Adipose Nuclei	Adipose
41	chr3:56600200-56607800	Strong transcription	Fetal Intestine Large	intestine
42	chr3:56600200-56608200	Strong transcription	Primary neutrophils fromperipheralblood	blood
43	chr3:56600200-56608200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr3:56600200-56609600	Strong transcription	Duodenum Smooth Muscle	Duodenum
45	chr3:56600400-56607800	Strong transcription	Brain Inferior Temporal Lobe	brain
46	chr3:56600600-56640000	Weak transcription	NHLF	lung
47	chr3:56601800-56615800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr3:56602000-56607800	Strong transcription	Brain Anterior Caudate	brain
49	chr3:56602000-56609400	Strong transcription	Brain Hippocampus Middle	brain
50	chr3:56602400-56616200	Weak transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links