Variant report

Variant	nsv965740
Chromosome Location	chr6:64290024-64291302
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:11)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:64288009..64290421-chr6:64344795..64347060,2	MCF-7	breast:
2	chr6:64289729..64291970-chr6:64293483..64297039,3	MCF-7	breast:
3	chr6:64290396..64294486-chr6:64298026..64303113,5	K562	blood:
4	chr6:64290346..64292394-chr6:64297512..64299743,2	MCF-7	breast:
5	chr6:64289813..64292111-chr6:64473996..64476108,2	K562	blood:
6	chr6:64288992..64292789-chr6:64292911..64296386,5	MCF-7	breast:
7	chr6:64199086..64201275-chr6:64290295..64292893,2	MCF-7	breast:

No data

(count:11 , 50 per page) page: 1

No.	miRNA target gene	miRNA name	Chromosome Location
1	PTP4A1	hsa-miR-30a-5p	chr6:64291015-64291021
2	PTP4A1	hsa-miR-19b-3p	chr6:64290782-64290802
3	PTP4A1	hsa-miR-19b-3p	chr6:64290795-64290801
4	PTP4A1	hsa-miR-186-5p	chr6:64290736-64290757
5	PTP4A1	hsa-miR-26b-5p	chr6:64291152-64291170
6	PTP4A1	hsa-miR-26b-5p	chr6:64291163-64291169
7	PTP4A1	hsa-miR-30a-5p	chr6:64291001-64291022
8	PTP4A1	hsa-miR-30a-5p	chr6:64290566-64290587
9	PTP4A1	hsa-miR-30a-5p	chr6:64290580-64290587
10	PTP4A1	hsa-miR-130b-3p	chr6:64290782-64290803
11	PTP4A1	hsa-miR-130b-3p	chr6:64290796-64290802

Variant related genes	Relation type
ENSG00000118482	chromatin interactions

Extended variants
information (count: 50 )
Associated
traits (count: 79 )

Variant overlapped rSNPs/rCNVs (count:50 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs368017955	chr6:64290028-64290029	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
2	rs575722475	chr6:64290035-64290036	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
3	rs141880918	chr6:64290049-64290050	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
4	rs546134768	chr6:64290050-64290051	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
5	rs201632872	chr6:64290076-64290077	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
6	rs200202391	chr6:64290110-64290111	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
7	rs528551398	chr6:64290111-64290112	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
8	rs201134694	chr6:64290120-64290121	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
9	rs546765127	chr6:64290129-64290130	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
10	rs73449618	chr6:64290237-64290238	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
11	rs188079207	chr6:64290253-64290254	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
12	rs549704309	chr6:64290263-64290264	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
13	rs550469155	chr6:64290314-64290315	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
14	rs111875888	chr6:64290326-64290327	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
15	rs6924622	chr6:64290330-64290331	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
16	rs569510631	chr6:64290368-64290369	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
17	rs539083897	chr6:64290389-64290390	Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
18	rs180745441	chr6:64290451-64290452	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs184765607	chr6:64290452-64290453	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
20	rs559984995	chr6:64290489-64290490	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
21	rs2758267	chr6:64290526-64290527	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
22	rs555164323	chr6:64290536-64290537	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
23	rs2758268	chr6:64290567-64290568	Strong transcription Weak transcription Genic enhancers	miRNA target site	1 gene(s)	Overlapped CNVs	n/a
24	rs575129323	chr6:64290586-64290587	Strong transcription Weak transcription Genic enhancers	miRNA target site	1 gene(s)	Overlapped CNVs	n/a
25	rs533971648	chr6:64290611-64290612	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
26	rs2758269	chr6:64290622-64290623	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
27	rs79929566	chr6:64290633-64290634	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
28	rs542201012	chr6:64290634-64290635	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
29	rs113906878	chr6:64290648-64290649	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs536018709	chr6:64290660-64290661	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
31	rs369278315	chr6:64290688-64290689	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs11969294	chr6:64290704-64290705	Strong transcription Weak transcription Genic enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
33	rs190476543	chr6:64290731-64290732	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
34	rs558527340	chr6:64290765-64290766	Strong transcription Weak transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
35	rs545892823	chr6:64290812-64290813	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
36	rs564540070	chr6:64290857-64290858	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
37	rs573134809	chr6:64290909-64290910	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
38	rs540761372	chr6:64290939-64290940	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
39	rs144114658	chr6:64290956-64290957	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
40	rs538473796	chr6:64290995-64290996	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
41	rs529056697	chr6:64291006-64291007	Weak transcription Strong transcription Genic enhancers	miRNA target site	1 gene(s)	Overlapped CNVs	n/a
42	rs2734850	chr6:64291031-64291032	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
43	rs376737099	chr6:64291057-64291058	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
44	rs570954323	chr6:64291070-64291071	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
45	rs550331872	chr6:64291074-64291075	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
46	rs562456039	chr6:64291078-64291079	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
47	rs551839415	chr6:64291120-64291121	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
48	rs181737298	chr6:64291153-64291154	Weak transcription Strong transcription Genic enhancers	miRNA target site	1 gene(s)	Overlapped CNVs	n/a
49	rs551362053	chr6:64291232-64291233	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
50	rs537940663	chr6:64291236-64291237	Weak transcription Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:79)

Disease	PMID	Source
Wilms tumour	21544195	CNVD
Uveal melanoma	21693616	CNVD
Glioblastoma multiforme	21080181	CNVD
Biliary cancer	19435499	CNVD
Medulloblastoma	21979893	CNVD
Malaria	21533027	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Ewing''s sarcoma	17952124	CNVD
Autism	21448237	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Lung cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
Autism	22495311	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Gastric cancer	17908304	CNVD
Biliary cancer	20360734	CNVD
Breast cancer	20360734	CNVD
Coronary artery disease	20360734	CNVD
Crohn''s disease	20360734	CNVD
Hypertension	20360734	CNVD
Rheumatoid arthritis	20360734	CNVD
Type 1 diabetes	20360734	CNVD
Type 2 diabetes	20360734	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Neuroblastoma	18923191	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Breast cancer	17603634	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Systemic lupus erythematosus	17503323	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Gastrointestinal stromal cancer	20818650	CNVD
Melanoma	18172304	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Cancer	21637783	CNVD
Malignant peripheral nerve sheath tumor	18522746	CNVD
Colorectal cancer	16272173	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
lymphocytic leukemia	21291569	CNVD
Acute lymphoblastic leukemia	17443227	CNVD
T-cell lymphomas	19863542	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Lung cancer	18438408	CNVD
Follicular lymphoma	19010834	CNVD
Non-small cell lung cancer	21044232	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	19960244	CNVD
Hepatocellular carcinoma	22174799	CNVD
Phyllodes tumor	17334353	CNVD
Breast cancer	16608533	CNVD
Non-small cell lung cancer	21385341	CNVD
Prostate cancer	16705090	CNVD
Adenoid cystic carcinoma	17372589	CNVD
Ependymoma	16718352	CNVD
High-proliferative meningiomas	17937814	CNVD
Intracranial tumor	16823260	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Breast cancer	21364760	CNVD
Acute lymphoblastic leukemia	18458336	CNVD
Cancer	20164920	CNVD
Prostate cancer	16573809	CNVD
Ovarian cancer	19835627	CNVD
Acute myeloid leukemia	20729466	CNVD
Myelofibrosis	22110671	CNVD
Cancer	21183584	CNVD
Glioblastoma multiforme	22286061	CNVD
Malignant fibrous histiocytomas	21085701	CNVD
Breast cancer	16272173	CNVD
Developmental delay	21147756	CNVD
small cell lung cancer	20016488	CNVD
Multiple myeloma	17550852	CNVD
Prostate cancer	18632612	CNVD
Cancer	20164919	CNVD

Chromatin state (count:173 , 50 per page) page: 1 2 3 4

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64284000-64294000	Weak transcription	Spleen	Spleen
2	chr6:64284000-64297200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:64284200-64294200	Weak transcription	Gastric	stomach
4	chr6:64284200-64294400	Weak transcription	Lung	lung
5	chr6:64284400-64292600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:64284400-64294400	Weak transcription	Aorta	Aorta
7	chr6:64284400-64296200	Weak transcription	Ovary	ovary
8	chr6:64284600-64292000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr6:64284600-64294800	Weak transcription	Right Ventricle	heart
10	chr6:64284800-64307600	Weak transcription	Fetal Stomach	stomach
11	chr6:64285000-64294800	Weak transcription	Stomach Mucosa	stomach
12	chr6:64285400-64293600	Weak transcription	Fetal Heart	heart
13	chr6:64285400-64294600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr6:64285600-64291600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
15	chr6:64285600-64292800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr6:64285600-64295800	Weak transcription	Fetal Intestine Small	intestine
17	chr6:64285800-64293000	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr6:64286000-64292800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
19	chr6:64286200-64290400	Strong transcription	H9 Cell Line	embryonic stem cell
20	chr6:64286200-64290600	Strong transcription	iPS-15b Cell Line	embryonic stem cell
21	chr6:64286200-64290600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr6:64286200-64290600	Strong transcription	K562	blood
23	chr6:64286200-64290800	Strong transcription	Primary hematopoietic stem cells	blood
24	chr6:64286200-64291400	Strong transcription	H1 Cell Line	embryonic stem cell
25	chr6:64286200-64291400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
26	chr6:64286200-64291800	Strong transcription	Cortex derived primary cultured neurospheres	brain
27	chr6:64286200-64292200	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr6:64286200-64292800	Strong transcription	HUES48 Cell Line	embryonic stem cell
29	chr6:64286200-64292800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr6:64286200-64292800	Strong transcription	Primary monocytes fromperipheralblood	blood
31	chr6:64286200-64292800	Strong transcription	HUVEC	blood vessel
32	chr6:64286200-64293000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr6:64286200-64293000	Strong transcription	Primary T helper cells fromperipheralblood	blood
34	chr6:64286200-64293000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr6:64286200-64293000	Strong transcription	Fetal Thymus	thymus
36	chr6:64286200-64293800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr6:64286200-64294000	Strong transcription	Primary B cells from cord blood	blood
38	chr6:64286200-64294000	Strong transcription	Monocytes-CD14+_RO01746	blood
39	chr6:64286200-64294400	Strong transcription	HSMM	muscle
40	chr6:64286400-64290400	Strong transcription	Fetal Lung	lung
41	chr6:64286400-64291000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr6:64286400-64291000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:64286400-64291200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr6:64286400-64291200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr6:64286400-64291400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr6:64286400-64291600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr6:64286400-64291800	Strong transcription	NHDF-Ad	bronchial
48	chr6:64286400-64293000	Strong transcription	Primary B cells from peripheral blood	blood
49	chr6:64286400-64293000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr6:64286400-64293000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links