Variant report

Variant	esv3493809
Chromosome Location	chr20:23102602-23104625
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:23103623..23110911-chr20:23111294..23114699,12	K562	blood:
2	chr20:23102012..23106528-chr20:23108448..23111067,5	K562	blood:
3	chr20:23099688..23102683-chr20:23112408..23115476,3	K562	blood:
4	chr20:23099426..23103463-chr20:23105068..23107847,3	K562	blood:
5	chr20:23102523..23105175-chr20:23127807..23130561,3	K562	blood:
6	chr20:23087953..23091765-chr20:23104298..23106744,4	K562	blood:
7	chr20:23103723..23106528-chr20:23107935..23111054,5	K562	blood:

Variant related genes	Relation type
ENSG00000233746	chromatin interactions

Extended variants
information (count: 85 )
Associated
traits (count: 58 )

Variant overlapped rSNPs/rCNVs (count:85 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs531711413	chr20:23102623-23102624	Weak transcription Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
2	rs542695889	chr20:23102649-23102650	Weak transcription Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
3	rs844879	chr20:23102665-23102666	Weak transcription Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
4	rs561997950	chr20:23102673-23102674	Weak transcription Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
5	rs75890546	chr20:23102688-23102689	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
6	rs148910497	chr20:23102731-23102732	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
7	rs566798170	chr20:23102732-23102733	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
8	rs844880	chr20:23102752-23102753	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
9	rs143647575	chr20:23102761-23102762	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
10	rs375227063	chr20:23102767-23102768	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
11	rs190617035	chr20:23102768-23102769	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
12	rs537409805	chr20:23102784-23102785	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
13	rs75979775	chr20:23102785-23102786	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
14	rs568060605	chr20:23102798-23102799	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
15	rs141242350	chr20:23102863-23102864	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
16	rs369570211	chr20:23102878-23102879	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
17	rs560760606	chr20:23102899-23102900	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
18	rs565706134	chr20:23102902-23102903	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
19	rs565493454	chr20:23102925-23102926	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
20	rs182291740	chr20:23102961-23102962	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
21	rs373090318	chr20:23103020-23103021	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
22	rs186275808	chr20:23103025-23103026	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
23	rs117380773	chr20:23103060-23103061	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
24	rs190396058	chr20:23103103-23103104	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
25	rs182948273	chr20:23103116-23103117	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
26	rs117521299	chr20:23103142-23103143	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
27	rs185422411	chr20:23103156-23103157	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
28	rs117792257	chr20:23103193-23103194	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
29	rs540455030	chr20:23103194-23103195	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
30	rs370640934	chr20:23103195-23103196	Weak transcription Enhancers Genic enhancers Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
31	rs560066959	chr20:23103211-23103212	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs532146210	chr20:23103212-23103213	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
33	rs368406999	chr20:23103237-23103238	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
34	rs552063828	chr20:23103284-23103285	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
35	rs568765959	chr20:23103285-23103286	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
36	rs531253294	chr20:23103304-23103305	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
37	rs191297312	chr20:23103412-23103413	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
38	rs370799214	chr20:23103497-23103498	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
39	rs533632981	chr20:23103542-23103543	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
40	rs139344589	chr20:23103632-23103633	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
41	rs80182235	chr20:23103659-23103660	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
42	rs373520619	chr20:23103676-23103677	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
43	rs182842221	chr20:23103683-23103684	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
44	rs145031032	chr20:23103693-23103694	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
45	rs75973779	chr20:23103723-23103724	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
46	rs576802611	chr20:23103738-23103739	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
47	rs542281039	chr20:23103800-23103801	Weak transcription Enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
48	rs555460043	chr20:23103817-23103818	Weak transcription Enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
49	rs572530545	chr20:23103822-23103823	Weak transcription Enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
50	rs541187184	chr20:23103864-23103865	Weak transcription Enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:58)

Disease	PMID	Source
Wilms tumour	21544195	CNVD
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
small cell lung cancer	20016488	CNVD
Lung cancer	18438408	CNVD
Autism	22495311	CNVD
Renal cell carcinoma	18765545	CNVD
Alagille syndrome	17576883	CNVD
Anaplastic large cell lymphoma	18179710	CNVD
Prostate cancer	18632612	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Cancer	21183584	CNVD
Myxofibrosarcoma	16751306	CNVD
Pancreatic endocrine tumor	17639061	CNVD
Breast cancer	16608533	CNVD
Cancer	20164919	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
Non-syndromic sensorineural hearing loss	17122850	CNVD
small cell lung cancer	17426248	CNVD

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23085800-23114600	Enhancers	Placenta	Placenta
2	chr20:23093000-23103200	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr20:23097600-23110200	Weak transcription	Pancreas	Pancrea
4	chr20:23098000-23106000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr20:23099600-23104600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr20:23099800-23105400	Weak transcription	Gastric	stomach
7	chr20:23100000-23103200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr20:23100000-23104000	Weak transcription	GM12878-XiMat	blood
9	chr20:23100200-23102800	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr20:23100200-23103400	Weak transcription	Primary B cells from cord blood	blood
11	chr20:23100200-23111200	Enhancers	Fetal Thymus	thymus
12	chr20:23100400-23103200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr20:23100400-23106000	Weak transcription	Colonic Mucosa	Colon
14	chr20:23100600-23103200	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr20:23100600-23103200	Flanking Active TSS	Dnd41	blood
16	chr20:23101000-23104400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr20:23101000-23104600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr20:23101200-23105400	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr20:23101200-23106600	Enhancers	Monocytes-CD14+_RO01746	blood
20	chr20:23101200-23109400	Weak transcription	Liver	Liver
21	chr20:23101400-23103200	Enhancers	K562	blood
22	chr20:23101400-23105800	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr20:23101400-23106000	Weak transcription	Adipose Nuclei	Adipose
24	chr20:23101600-23103200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr20:23101600-23103200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr20:23101600-23104600	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr20:23101800-23106000	Weak transcription	Left Ventricle	heart
28	chr20:23101800-23109200	Weak transcription	Right Ventricle	heart
29	chr20:23102000-23104600	Weak transcription	Esophagus	oesophagus
30	chr20:23102000-23105800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr20:23102000-23105800	Weak transcription	Lung	lung
32	chr20:23102000-23106200	Weak transcription	Right Atrium	heart
33	chr20:23102000-23106600	Weak transcription	Spleen	Spleen
34	chr20:23102000-23114000	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr20:23102600-23103200	Enhancers	Primary hematopoietic stem cells	blood
36	chr20:23102800-23105000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chr20:23103200-23104600	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr20:23103200-23104600	Enhancers	Dnd41	blood
39	chr20:23103200-23105400	Weak transcription	K562	blood
40	chr20:23103200-23105800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr20:23103200-23105800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr20:23103200-23106000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr20:23103200-23106400	Weak transcription	Primary hematopoietic stem cells	blood
44	chr20:23103200-23109800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr20:23103400-23104000	Enhancers	Primary B cells from cord blood	blood
46	chr20:23103800-23104000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
47	chr20:23104000-23105400	Enhancers	GM12878-XiMat	blood
48	chr20:23104000-23105800	Weak transcription	Primary B cells from cord blood	blood
49	chr20:23104000-23108000	Enhancers	Fetal Muscle Trunk	muscle
50	chr20:23104200-23106000	Enhancers	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links