Variant report

Variant	nsv819139
Chromosome Location	chr15:52603664-52605766
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:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:9)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr15:52597059..52600522-chr15:52602504..52605228,3	MCF-7	breast:
2	chr15:52604847..52607101-chr15:52623641..52625767,2	K562	blood:
3	chr15:52602148..52604034-chr15:52608756..52610606,2	MCF-7	breast:
4	chr15:52605031..52607219-chr3:162453213..162454978,2	MCF-7	breast:
5	chr15:52603895..52607555-chr15:52612385..52616667,4	MCF-7	breast:
6	chr15:52590879..52593445-chr15:52599970..52603838,3	MCF-7	breast:
7	chr15:52604349..52605876-chr15:52609371..52611245,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MAPK6-8	chr15:52603130-52603672	NONHSAT043927

No data

(count:9 , 50 per page) page: 1

No.	miRNA target gene	miRNA name	Chromosome Location
1	MYO5A	hsa-miR-145-5p	chr15:52605763-52605756
2	MYO5A	hsa-miR-145-5p	chr15:52605757-52605779
3	MYO5A	hsa-miR-145-5p	chr15:52605111-52605105
4	MYO5A	hsa-miR-145-5p	chr15:52605155-52605177
5	MYO5A	hsa-miR-32-5p	chr15:52604121-52604114
6	MYO5A	hsa-miR-16-5p	chr15:52605254-52605275
7	MYO5A	hsa-miR-16-5p	chr15:52605260-52605253
8	MYO5A	hsa-miR-145-5p	chr15:52605161-52605155
9	MYO5A	hsa-miR-32-5p	chr15:52604115-52604140

Variant related genes	Relation type
ENSG00000197535	chromatin interactions

Extended variants
information (count: 84 )
Associated
traits (count: 56 )

Variant overlapped rSNPs/rCNVs (count:84 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs367866359	chr15:52603746-52603747	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
2	rs201861614	chr15:52603750-52603751	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs183146712	chr15:52603762-52603763	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs79679001	chr15:52603810-52603811	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs375729699	chr15:52603870-52603871	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs540604649	chr15:52603938-52603939	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
7	rs561476491	chr15:52603976-52603977	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
8	rs371901458	chr15:52603981-52603982	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
9	rs562041851	chr15:52604012-52604013	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
10	rs529306836	chr15:52604020-52604021	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
11	rs187436006	chr15:52604022-52604023	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
12	rs142690088	chr15:52604033-52604034	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
13	rs147360109	chr15:52604101-52604102	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
14	rs75498066	chr15:52604111-52604112	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
15	rs200213366	chr15:52604135-52604136	Weak transcription Strong transcription	Chromatin interactive region miRNA target site	2 gene(s)	Overlapped CNVs	n/a
16	rs201016729	chr15:52604136-52604137	Weak transcription Strong transcription	Chromatin interactive region miRNA target site	2 gene(s)	Overlapped CNVs	n/a
17	rs3079001	chr15:52604139-52604140	Weak transcription Strong transcription	Chromatin interactive region miRNA target site	2 gene(s)	Overlapped CNVs	n/a
18	rs202232418	chr15:52604140-52604141	Weak transcription Strong transcription	Chromatin interactive region miRNA target site	2 gene(s)	Overlapped CNVs	n/a
19	rs566200161	chr15:52604165-52604166	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
20	rs368605979	chr15:52604203-52604204	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
21	rs527361464	chr15:52604212-52604213	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
22	rs555754932	chr15:52604216-52604217	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
23	rs529848057	chr15:52604339-52604340	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
24	rs192032595	chr15:52604368-52604369	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
25	rs537493532	chr15:52604404-52604405	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
26	rs572295494	chr15:52604419-52604420	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
27	rs557586990	chr15:52604450-52604451	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
28	rs148375985	chr15:52604486-52604487	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
29	rs542795524	chr15:52604498-52604499	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
30	rs372542684	chr15:52604499-52604500	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
31	rs558406769	chr15:52604525-52604526	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
32	rs62015995	chr15:52604533-52604534	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
33	rs28475475	chr15:52604545-52604546	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
34	rs199930770	chr15:52604566-52604567	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
35	rs28650960	chr15:52604623-52604624	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
36	rs141598172	chr15:52604641-52604642	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
37	rs185603874	chr15:52604647-52604648	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
38	rs562767390	chr15:52604662-52604663	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
39	rs574071153	chr15:52604668-52604669	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
40	rs150908009	chr15:52604679-52604680	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
41	rs139335691	chr15:52604680-52604681	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
42	rs552518770	chr15:52604698-52604699	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
43	rs368154854	chr15:52604699-52604700	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
44	rs568821628	chr15:52604711-52604712	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
45	rs559898488	chr15:52604712-52604713	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
46	rs537849315	chr15:52604772-52604773	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
47	rs142981340	chr15:52604777-52604778	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
48	rs375986156	chr15:52604798-52604799	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
49	rs531298992	chr15:52604804-52604805	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
50	rs112452193	chr15:52604846-52604847	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:56)

Disease	PMID	Source
Ewing''s sarcoma	21437220	CNVD
Schizophrenia	19415332	CNVD
Breast cancer	22522925	CNVD
Autism	22495311	CNVD
Wilms tumour	21544195	CNVD
Testicular germ cell tumor	18059402	CNVD
cataract	16735990	CNVD
Cancer	21637783	CNVD
Colorectal cancer	20709793	CNVD
Medulloblastoma	21979893	CNVD
spastic paraplegia with thinning of corpus callosum	19105190	CNVD
Schizophrenia	21324950	CNVD
Astrocytoma	17387387	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Disease	21824424	CNVD
Melanoma	18172304	CNVD
Colorectal cancer	16774939	CNVD
Gastric cancer	17167181	CNVD
Neuroblastoma	19435921	CNVD
Colorectal cancer	19359472	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Multiple myeloma	17077331	CNVD
Colorectal cancer	16272173	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Multiple myeloma	17550852	CNVD
Intellectual disability	22102821	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Acute myeloid leukemia	20729466	CNVD
Prostate cancer	16573809	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Multiple myeloma	20724749	CNVD
Lung cancer	18438408	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Breast cancer	21785460	CNVD
Gastrointestinal stromal cancer	16982739	CNVD
Prostate cancer	18632612	CNVD
small cell lung cancer	20016488	CNVD
Basal cell lymphoma	17053054	CNVD
Breast cancer	22032731	CNVD
Basal cell lymphoma	17170743	CNVD
Follicular lymphoma	17170743	CNVD
Hirschsprung''s Disease	21712996	CNVD
Myeloproliferative neoplasm	20015882	CNVD
Cancer	21129771	CNVD
Breast cancer	16272173	CNVD
Hepatocellular carcinoma	16750200	CNVD
Abnormal phenotypes	18644119	CNVD
Cancer	16751803	CNVD
Esophageal adenocarcinoma	18820669	CNVD
Gastrointestinal stromal cancer	20818650	CNVD
Ovarian clear cell carcinoma	21343371	CNVD
Myelofibrosis	22110671	CNVD
Pancreatic ductal adenocarcinoma	19077451	CNVD

Chromatin state (count:151 , 50 per page) page: 1 2 3 4

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52593600-52608600	Weak transcription	Fetal Brain Male	brain
2	chr15:52595200-52605600	Weak transcription	Duodenum Mucosa	Duodenum
3	chr15:52595400-52605600	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr15:52595400-52610800	Weak transcription	Rectal Smooth Muscle	rectum
5	chr15:52595400-52614200	Weak transcription	Fetal Lung	lung
6	chr15:52595600-52609800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr15:52595800-52628800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr15:52596000-52604800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr15:52596000-52605000	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr15:52596000-52605000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr15:52596000-52608400	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr15:52596000-52608800	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr15:52596000-52611000	Weak transcription	Fetal Stomach	stomach
14	chr15:52596200-52623600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr15:52596400-52605000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr15:52596400-52608600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr15:52597600-52608600	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr15:52597800-52629600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr15:52597800-52643400	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr15:52598400-52608400	Weak transcription	Brain Hippocampus Middle	brain
21	chr15:52598800-52604400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr15:52599000-52605200	Weak transcription	HMEC	breast
23	chr15:52599000-52605200	Weak transcription	NHEK	skin
24	chr15:52599200-52605000	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr15:52599200-52611000	Weak transcription	NHLF	lung
26	chr15:52599400-52611000	Weak transcription	Fetal Thymus	thymus
27	chr15:52599400-52611000	Weak transcription	Thymus	Thymus
28	chr15:52599600-52605400	Weak transcription	Brain Germinal Matrix	brain
29	chr15:52599800-52611000	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr15:52599800-52611000	Weak transcription	A549	lung
31	chr15:52600400-52607400	Weak transcription	Colon Smooth Muscle	Colon
32	chr15:52600400-52611200	Weak transcription	Colonic Mucosa	Colon
33	chr15:52600600-52611000	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr15:52600600-52624200	Weak transcription	Liver	Liver
35	chr15:52600800-52603800	Strong transcription	Primary T cells from cord blood	blood
36	chr15:52600800-52622800	Strong transcription	Primary T cells fromperipheralblood	blood
37	chr15:52600800-52646600	Strong transcription	Primary neutrophils fromperipheralblood	blood
38	chr15:52601000-52606800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr15:52601000-52608600	Weak transcription	Brain Anterior Caudate	brain
40	chr15:52601000-52610000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr15:52601000-52611000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr15:52601000-52622600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr15:52601000-52643400	Strong transcription	Primary monocytes fromperipheralblood	blood
44	chr15:52601200-52604200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr15:52601200-52604200	Strong transcription	Skeletal Muscle Male	skeletal muscle
46	chr15:52601200-52606400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
47	chr15:52601200-52611000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr15:52601200-52615200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr15:52601200-52622600	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr15:52601400-52605400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links