Variant report

Variant	esv3356798
Chromosome Location	chr3:133131662-133135760
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:133130542..133132514-chr3:133135726..133138397,2	K562	blood:
2	chr3:133127092..133128594-chr3:133130623..133133431,2	K562	blood:
3	chr3:133130542..133132514-chr3:133135726..133138397,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TOPBP1-6	chr3:133131577-133131725	NONHSAT092182

Extended variants
information (count: 220 )
Associated
traits (count: 54 )

Variant overlapped rSNPs/rCNVs (count:220 , 50 per page) page: 1 2 3 4 5

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs191987089	chr3:133131715-133131716	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	lncRNA	n/a	Overlapped CNVs	n/a
2	rs16840387	chr3:133131716-133131717	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
3	rs181266280	chr3:133131793-133131794	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	n/a	n/a	Overlapped CNVs	n/a
4	rs186724284	chr3:133131839-133131840	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
5	rs562096930	chr3:133131874-133131875	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
6	rs72980052	chr3:133131881-133131882	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
7	rs6774565	chr3:133131899-133131900	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
8	rs34681551	chr3:133131924-133131925	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
9	rs570912068	chr3:133131970-133131971	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
10	rs113440699	chr3:133131993-133131994	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
11	rs629644	chr3:133132017-133132018	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
12	rs547164548	chr3:133132023-133132024	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
13	rs112492843	chr3:133132026-133132027	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
14	rs536126392	chr3:133132029-133132030	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
15	rs555823197	chr3:133132032-133132033	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
16	rs6810268	chr3:133132052-133132053	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
17	rs536600013	chr3:133132145-133132146	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
18	rs377267334	chr3:133132151-133132152	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
19	rs556546199	chr3:133132171-133132172	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
20	rs114752484	chr3:133132179-133132180	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
21	rs539205413	chr3:133132197-133132198	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	Overlapped CNVs	n/a
22	rs149610310	chr3:133132224-133132225	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS	n/a	n/a	Overlapped CNVs	n/a
23	rs116570170	chr3:133132225-133132226	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS	n/a	n/a	Overlapped CNVs	n/a
24	rs542023037	chr3:133132436-133132437	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	n/a	n/a	Overlapped CNVs	n/a
25	rs10935059	chr3:133132496-133132497	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
26	rs190625537	chr3:133132574-133132575	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	n/a	n/a	Overlapped CNVs	n/a
27	rs182308177	chr3:133132657-133132658	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	n/a	n/a	Overlapped CNVs	n/a
28	rs544577270	chr3:133132658-133132659	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	n/a	n/a	Overlapped CNVs	n/a
29	rs537787111	chr3:133132665-133132666	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	n/a	n/a	Overlapped CNVs	n/a
30	rs187788829	chr3:133132780-133132781	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	n/a	n/a	Overlapped CNVs	n/a
31	rs533464649	chr3:133132796-133132797	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	n/a	n/a	Overlapped CNVs	n/a
32	rs74847136	chr3:133132797-133132798	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	n/a	n/a	Overlapped CNVs	n/a
33	rs148375839	chr3:133132803-133132804	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
34	rs143267727	chr3:133132829-133132830	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
35	rs191100346	chr3:133132849-133132850	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
36	rs183528095	chr3:133132851-133132852	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
37	rs577325335	chr3:133132857-133132858	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
38	rs569165333	chr3:133132862-133132863	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
39	rs147941482	chr3:133132880-133132881	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
40	rs552711632	chr3:133132882-133132883	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
41	rs188297503	chr3:133132893-133132894	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
42	rs546393607	chr3:133132899-133132900	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
43	rs550247233	chr3:133132912-133132913	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
44	rs113986587	chr3:133132921-133132922	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
45	rs113553966	chr3:133132959-133132960	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
46	rs570140571	chr3:133133033-133133034	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs193117030	chr3:133133037-133133038	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs151032579	chr3:133133088-133133089	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs11711011	chr3:133133095-133133096	Enhancers Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
50	rs552758029	chr3:133133113-133133114	Enhancers Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:54)

Disease	PMID	Source
Basal cell lymphoma	17053054	CNVD
Esophageal cancer	21851588	CNVD
Uveal melanoma	21693616	CNVD
Glioblastoma multiforme	21080181	CNVD
Retinoblastoma	21504564	CNVD
Medulloblastoma	21979893	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Intellectual disability	22102821	CNVD
Autism	22495311	CNVD
Lung cancer	18438408	CNVD
Cancer	21129771	CNVD
Congenital diaphragmatic hernia	21085971	CNVD
Cervical cancer	21062161	CNVD
Squamous cell cancer	20885788	CNVD
Melanoma	18172304	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Bipolar disorder	18458673	CNVD
Breast cancer	22032731	CNVD
Breast cancer	16461572	CNVD
Neuroblastoma	17533364	CNVD
Cervical Cancer	21857958	CNVD
Melanoma	21693616	CNVD
Lung cancer	21426551	CNVD
Cancer	21637783	CNVD
Cervical cancer	21063398	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Liposarcoma	21253554	CNVD
Oral cancer	21386901	CNVD
Renal cell carcinoma	19461508	CNVD
Cancer	22065749	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
microdeletion syndrome	22180640	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Multiple myeloma	17550852	CNVD
Basal cell lymphoma	21115979	CNVD
Ovarian cancer	22174824	CNVD
Colorectal cancer	18645599	CNVD
head and neck squamous cell carcinoma	17671120	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Hepatocellular carcinoma	16750200	CNVD
Hailey-hailey disease	17597066	CNVD
Intracranial aneurysm	16715129	CNVD
Lung cancer	16740712	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Myelodysplastic syndrome	21251322	CNVD
Myelofibrosis	22110671	CNVD
Primary central nervous system lymphoma	21088137	CNVD
Blepharophimosis-ptosis-epicanthus inversus syndrome	22067867	CNVD
Pancreatic cancer	17952125	CNVD
Cancer	20164919	CNVD
Breast cancer	22522925	CNVD
small cell lung cancer	20016488	CNVD

Chromatin state (count:128 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133123000-133131800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:133124000-133132000	Weak transcription	Brain Substantia Nigra	brain
3	chr3:133124600-133138400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:133129600-133131800	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr3:133129600-133132200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr3:133130800-133131800	Weak transcription	Right Atrium	heart
7	chr3:133131000-133132200	Weak transcription	Brain Hippocampus Middle	brain
8	chr3:133131000-133132600	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr3:133131000-133133000	Enhancers	Fetal Brain Male	brain
10	chr3:133131200-133131800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr3:133131200-133131800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr3:133131200-133131800	Active TSS	HSMM	muscle
13	chr3:133131200-133132200	Active TSS	Fetal Lung	lung
14	chr3:133131400-133131800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr3:133131400-133131800	Enhancers	Muscle Satellite Cultured Cells	--
16	chr3:133131400-133131800	Active TSS	Brain Inferior Temporal Lobe	brain
17	chr3:133131400-133131800	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
18	chr3:133131400-133132000	Active TSS	Brain Cingulate Gyrus	brain
19	chr3:133131400-133132000	Bivalent Enhancer	Fetal Stomach	stomach
20	chr3:133131400-133132200	Enhancers	Ovary	ovary
21	chr3:133131400-133132600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr3:133131400-133132600	Enhancers	Fetal Brain Female	brain
23	chr3:133131400-133132800	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr3:133131400-133132800	Active TSS	NHLF	lung
25	chr3:133131400-133133000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr3:133131400-133133200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr3:133131600-133131800	Bivalent Enhancer	Adipose Nuclei	Adipose
28	chr3:133131600-133131800	Active TSS	Duodenum Smooth Muscle	Duodenum
29	chr3:133131600-133131800	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
30	chr3:133131600-133131800	Active TSS	Osteobl	bone
31	chr3:133131600-133132000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr3:133131600-133132000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr3:133131600-133132000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
34	chr3:133131600-133132200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr3:133131600-133132200	Enhancers	Brain Angular Gyrus	brain
36	chr3:133131600-133132200	Enhancers	NHDF-Ad	bronchial
37	chr3:133131600-133132600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr3:133131600-133132600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
39	chr3:133131600-133132600	Flanking Active TSS	Colon Smooth Muscle	Colon
40	chr3:133131600-133132600	Flanking Active TSS	HSMMtube	muscle
41	chr3:133131600-133132800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr3:133131600-133132800	Active TSS	Pancreatic Islets	Pancreatic Islet
43	chr3:133131600-133132800	Active TSS	Stomach Smooth Muscle	stomach
44	chr3:133131600-133133000	Bivalent Enhancer	Fetal Muscle Leg	muscle
45	chr3:133131600-133133000	Enhancers	Placenta	Placenta
46	chr3:133131800-133132000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr3:133131800-133132000	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
48	chr3:133131800-133132200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
49	chr3:133131800-133132200	Enhancers	Adipose Nuclei	Adipose
50	chr3:133131800-133132200	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum

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