Variant report

Variant	esv2239708
Chromosome Location	chr3:195666958-195667634
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TFRC-1	chr3:195666274-195667064	NONHSAT094272

Extended variants
information (count: 58 )
Associated
traits (count: 83 )

Variant overlapped rSNPs/rCNVs (count:58 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs113050284	chr3:195666977-195666978	Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
2	rs151071871	chr3:195666980-195666981	Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
3	rs77249025	chr3:195666995-195666996	Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
4	rs560889471	chr3:195667029-195667030	Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
5	rs76748991	chr3:195667032-195667033	Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
6	rs564141039	chr3:195667034-195667035	Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
7	rs78232273	chr3:195667061-195667062	Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
8	rs74622027	chr3:195667069-195667070	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
9	rs113648303	chr3:195667073-195667074	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
10	rs546728123	chr3:195667076-195667077	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
11	rs376509757	chr3:195667077-195667078	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
12	rs185752636	chr3:195667109-195667110	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
13	rs62284407	chr3:195667111-195667112	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
14	rs62284408	chr3:195667113-195667114	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
15	rs62284409	chr3:195667119-195667120	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
16	rs551190398	chr3:195667125-195667126	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
17	rs62284410	chr3:195667126-195667127	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
18	rs62284411	chr3:195667128-195667129	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
19	rs62284412	chr3:195667131-195667132	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
20	rs190143334	chr3:195667147-195667148	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
21	rs536567025	chr3:195667149-195667150	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
22	rs548423680	chr3:195667150-195667151	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
23	rs540374690	chr3:195667152-195667153	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
24	rs533969479	chr3:195667189-195667190	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
25	rs182605001	chr3:195667203-195667204	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
26	rs140998198	chr3:195667215-195667216	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
27	rs149790729	chr3:195667219-195667220	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
28	rs557137689	chr3:195667262-195667263	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
29	rs62284413	chr3:195667281-195667282	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
30	rs113517879	chr3:195667289-195667290	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
31	rs542947443	chr3:195667309-195667310	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
32	rs554866005	chr3:195667337-195667338	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
33	rs145002336	chr3:195667338-195667339	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	mRNA abundance
34	rs540258802	chr3:195667362-195667363	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
35	rs564710029	chr3:195667370-195667371	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
36	rs373857295	chr3:195667385-195667386	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
37	rs543943617	chr3:195667387-195667388	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
38	rs563097951	chr3:195667388-195667389	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
39	rs370408551	chr3:195667389-195667390	Strong transcription Weak transcription ZNF genes & repeats	n/a	n/a	Overlapped CNVs	n/a
40	rs548363550	chr3:195667401-195667402	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs529296508	chr3:195667404-195667405	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs374378148	chr3:195667436-195667437	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs527958573	chr3:195667462-195667463	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs552578079	chr3:195667463-195667464	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs570725112	chr3:195667469-195667470	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs111844935	chr3:195667472-195667473	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
47	rs538358530	chr3:195667478-195667479	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs112210635	chr3:195667479-195667480	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs113276667	chr3:195667482-195667483	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs62284414	chr3:195667492-195667493	ZNF genes & repeats Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:83)

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
Squamous cell cancer	20885788	CNVD
Melanoma	18172304	CNVD
T-cell prolymphocytic leukemia	19278963	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
Basal cell lymphoma	21115979	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Myelodysplastic syndrome	21251322	CNVD
Breast cancer	16608533	CNVD
Acute myeloid leukemia	20729466	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Breast cancer	21785460	CNVD
Breast cancer	17133270	CNVD
Cancer	16751803	CNVD
abnormal development	18461090	CNVD
Autism	19653912	CNVD
small cell lung cancer	20016488	CNVD
Cancer	20164920	CNVD
Prostate cancer	18632612	CNVD
Cervical cancer	21062161	CNVD
Malignant peripheral nerve sheath tumor	18522746	CNVD
Austim spectrum disorder	21302340	CNVD
Colorectal cancer	16272173	CNVD
Breast cancer	16397240	CNVD
Epilepsy	20736978	CNVD
Mental retardation	20736978	CNVD
speech impairment	20736978	CNVD
Intracranial aneurysm	16715129	CNVD
Esophageal squamous carcinoma	17470683	CNVD
Mental retardation	17124404	CNVD
Congenital anomalies of the kidney and urinary tract	20299530	CNVD
Developmental delay	21147756	CNVD
Breast cancer	21509527	CNVD
Cancer	21129771	CNVD
Myelofibrosis	22110671	CNVD
Neurodevelopmental disorder	16760732	CNVD
Schizophrenia	22118685	CNVD
Schizophrenia	22958593	CNVD
Schizophrenia	21285140	CNVD
Schizophrenia	20970697	CNVD
Mental retardation	19951919	CNVD
Autism	20970697	CNVD
Developmental delay	18471269	CNVD
Intellectual disability	22045946	CNVD
Breast cancer	21045282	CNVD
Primary central nervous system lymphoma	21088137	CNVD
Ovarian cancer	20844748	CNVD
Adenocarcinoma	19607727	CNVD
Squamous cell cancer	19607727	CNVD
Uveal melanoma	20484589	CNVD
3q29 microdeletion syndrome	20500065	CNVD
Biliary cancer	20453639	CNVD
3q29 microdeletion syndrome	22283845	CNVD
3q29 microdeletion syndrome	21626679	CNVD
Acute lymphoblastic leukemia	21098271	CNVD
Ovarian cancer	21720365	CNVD
Breast cancer	21364760	CNVD
Urothelial carcinoma	21177765	CNVD
Cancer	20164919	CNVD
Breast cancer	22522925	CNVD

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:195647200-195681200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr3:195648600-195680600	Weak transcription	Pancreas	Pancrea
3	chr3:195651200-195671200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr3:195651800-195673800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:195656600-195681000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:195656800-195669200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:195656800-195671200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:195656800-195676400	Weak transcription	Stomach Smooth Muscle	stomach
9	chr3:195656800-195679400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr3:195657400-195670000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr3:195657800-195681400	Weak transcription	GM12878-XiMat	blood
12	chr3:195659000-195667200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr3:195659000-195676400	Weak transcription	Hela-S3	cervix
14	chr3:195659600-195681200	Weak transcription	Brain Hippocampus Middle	brain
15	chr3:195659600-195685600	Weak transcription	Small Intestine	intestine
16	chr3:195660000-195669800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr3:195660000-195681200	Weak transcription	Colonic Mucosa	Colon
18	chr3:195660400-195680600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr3:195660600-195669600	Weak transcription	A549	lung
20	chr3:195660600-195681200	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr3:195660800-195667000	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr3:195660800-195669400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr3:195661200-195681000	Weak transcription	Ovary	ovary
24	chr3:195661400-195669600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr3:195661800-195669800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr3:195661800-195681200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr3:195663400-195681200	Weak transcription	Left Ventricle	heart
28	chr3:195663600-195673800	Weak transcription	Liver	Liver
29	chr3:195663600-195681000	Weak transcription	Fetal Brain Female	brain
30	chr3:195663600-195681200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr3:195663600-195681200	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr3:195663800-195682000	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr3:195664000-195668400	Weak transcription	Rectal Smooth Muscle	rectum
34	chr3:195664400-195681200	Weak transcription	Osteobl	bone
35	chr3:195665000-195681200	Weak transcription	Placenta	Placenta
36	chr3:195665200-195677800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr3:195665200-195691800	Weak transcription	HSMMtube	muscle
38	chr3:195665400-195681400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr3:195665400-195685200	Weak transcription	Aorta	Aorta
40	chr3:195666000-195668200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr3:195666000-195673200	Weak transcription	Primary B cells from cord blood	blood
42	chr3:195666000-195677200	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr3:195666000-195677800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr3:195666400-195667000	Weak transcription	Dnd41	blood
45	chr3:195666400-195668000	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr3:195666400-195670600	Strong transcription	Fetal Intestine Small	intestine
47	chr3:195666600-195667200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr3:195666600-195667200	Strong transcription	iPS-15b Cell Line	embryonic stem cell
49	chr3:195666600-195667400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr3:195666600-195667400	Strong transcription	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links