Variant report

Variant	nsv499328
Chromosome Location	chr20:25524547-25524728
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	chr20:25524378..25525990-chr20:25604731..25606396,2	MCF-7	breast:
2	chr20:25524006..25525778-chr20:25527051..25529614,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213742	chromatin interactions
ENSG00000170191	chromatin interactions

Extended variants
information (count: 5 )
Associated
traits (count: 55 )

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs528183513	chr20:25524573-25524574	Weak transcription Enhancers Genic enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
2	rs58167480	chr20:25524582-25524583	Weak transcription Enhancers Genic enhancers	Chromatin interactive region	2 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
3	rs570679217	chr20:25524599-25524600	Weak transcription Enhancers Genic enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
4	rs539669097	chr20:25524600-25524601	Weak transcription Enhancers Genic enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
5	rs561087413	chr20:25524647-25524648	Weak transcription Enhancers Genic enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:55)

Disease	PMID	Source
Endometrioid adenocarcinoma	16974079	CNVD
Breast cancer	16272173	CNVD
Melanoma	18172304	CNVD
Cancer	21637783	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Ewing''s sarcoma	21437220	CNVD
Oral cancer	19627613	CNVD
colon cancer	17210682	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	21080181	CNVD
Thyroid cancer	19087340	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Cancer	16751803	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Colorectal cancer	19359472	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Human rectal carcinomas	16397240	CNVD
Olfactory neuroblastoma	18408657	CNVD
Central neurocytomas	17123091	CNVD
Colorectal cancer	16272173	CNVD
Medulloblastoma	21979893	CNVD
Gastric cancer	17908304	CNVD
Urothelial carcinoma	21177765	CNVD
Acute myeloid leukemia	20729466	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Ewing''s sarcoma	17952124	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Colorectal cancer	21645411	CNVD
Lung cancer	18438408	CNVD
Autism	22495311	CNVD
Renal cell carcinoma	18765545	CNVD
Alagille syndrome	17576883	CNVD
Anaplastic large cell lymphoma	18179710	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Cancer	21183584	CNVD
Myxofibrosarcoma	16751306	CNVD
Pancreatic endocrine tumor	17639061	CNVD
Breast cancer	16608533	CNVD
Bladder cancer	21909424	CNVD
Esophageal cancer	21851588	CNVD
Breast cancer	17133270	CNVD
Thrombophilia	17576883	CNVD
Myelofibrosis	22110671	CNVD
Mental retardation	21062444	CNVD
Hepatocellular carcinoma	22174799	CNVD
Barrett''s adenocarcinoma	18663352	CNVD
Chordoma	18071362	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Breast cancer	21364760	CNVD
Oral cancer	21386901	CNVD
small cell lung cancer	20016488	CNVD

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25498200-25532200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr20:25517800-25554600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr20:25518800-25530200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr20:25520000-25532000	Weak transcription	Dnd41	blood
5	chr20:25520200-25529000	Weak transcription	Stomach Mucosa	stomach
6	chr20:25520400-25525000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr20:25520600-25527400	Weak transcription	Lung	lung
8	chr20:25520600-25528800	Weak transcription	Gastric	stomach
9	chr20:25520800-25524800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr20:25521000-25530200	Weak transcription	Brain Germinal Matrix	brain
11	chr20:25521200-25529200	Weak transcription	Placenta	Placenta
12	chr20:25521200-25530600	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr20:25521400-25524800	Weak transcription	Fetal Kidney	kidney
14	chr20:25521400-25525000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr20:25521400-25525000	Enhancers	Muscle Satellite Cultured Cells	--
16	chr20:25521400-25525000	Weak transcription	Brain Substantia Nigra	brain
17	chr20:25521400-25525000	Weak transcription	Fetal Heart	heart
18	chr20:25521400-25525000	Weak transcription	Fetal Muscle Leg	muscle
19	chr20:25521400-25525200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr20:25521400-25525200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr20:25521400-25525200	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr20:25521400-25525200	Weak transcription	Brain Anterior Caudate	brain
23	chr20:25521400-25525200	Weak transcription	Fetal Stomach	stomach
24	chr20:25521400-25525400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr20:25521400-25525800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr20:25521400-25525800	Weak transcription	Brain Hippocampus Middle	brain
27	chr20:25521400-25525800	Enhancers	Osteobl	bone
28	chr20:25521400-25529200	Weak transcription	Ovary	ovary
29	chr20:25521400-25530000	Weak transcription	HSMM	muscle
30	chr20:25521400-25532200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr20:25521400-25534200	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr20:25521600-25525000	Weak transcription	Stomach Smooth Muscle	stomach
33	chr20:25521600-25526000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr20:25521600-25530200	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr20:25521600-25565000	Weak transcription	Aorta	Aorta
36	chr20:25521800-25525200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr20:25522000-25524800	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr20:25522000-25524800	Weak transcription	Fetal Brain Female	brain
39	chr20:25522000-25524800	Weak transcription	Rectal Smooth Muscle	rectum
40	chr20:25522000-25525200	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr20:25522000-25530000	Weak transcription	Colon Smooth Muscle	Colon
42	chr20:25522400-25526000	Enhancers	NHLF	lung
43	chr20:25522400-25526400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr20:25522800-25524800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr20:25522800-25525000	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr20:25522800-25528800	Weak transcription	Spleen	Spleen
47	chr20:25523000-25525000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr20:25523000-25525200	Weak transcription	Fetal Thymus	thymus
49	chr20:25523000-25527400	Weak transcription	Pancreas	Pancrea
50	chr20:25523000-25529000	Weak transcription	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links