Variant report

Variant	esv3420061
Chromosome Location	chr13:39896952-39901350
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LHFP-1	chr13:39898260-39898458	XLOC_010576

Variant related genes	Relation type
CCNE2	miRNA target sites

Extended variants
information (count: 171 )
Associated
traits (count: 101 )

Variant overlapped rSNPs/rCNVs (count:171 , 50 per page) page: 1 2 3 4

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs376306176	chr13:39896953-39896954	Weak transcription Enhancers Active TSS	n/a	n/a	Overlapped CNVs	n/a
2	rs551024681	chr13:39897011-39897012	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
3	rs536503731	chr13:39897017-39897018	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
4	rs529900745	chr13:39897025-39897026	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
5	rs373539227	chr13:39897037-39897038	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
6	rs567940070	chr13:39897105-39897106	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
7	rs530087718	chr13:39897222-39897223	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
8	rs140960961	chr13:39897232-39897233	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
9	rs566632635	chr13:39897247-39897248	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
10	rs538711183	chr13:39897293-39897294	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
11	rs74859261	chr13:39897359-39897360	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
12	rs150163746	chr13:39897376-39897377	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
13	rs537231327	chr13:39897410-39897411	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
14	rs569153149	chr13:39897434-39897435	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
15	rs79746524	chr13:39897523-39897524	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
16	rs557012894	chr13:39897556-39897557	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
17	rs192335866	chr13:39897560-39897561	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
18	rs74820700	chr13:39897580-39897581	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
19	rs138665963	chr13:39897588-39897589	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
20	rs572998684	chr13:39897589-39897590	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	Overlapped CNVs	n/a
21	rs545155283	chr13:39897659-39897660	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
22	rs564977417	chr13:39897707-39897708	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
23	rs531053143	chr13:39897733-39897734	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
24	rs544789284	chr13:39897823-39897824	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
25	rs182365498	chr13:39897843-39897844	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
26	rs186737799	chr13:39897872-39897873	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
27	rs546604662	chr13:39897888-39897889	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
28	rs566499804	chr13:39897901-39897902	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
29	rs191548783	chr13:39897916-39897917	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs532349655	chr13:39897926-39897927	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
31	rs552284234	chr13:39897947-39897948	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs563114018	chr13:39897958-39897959	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
33	rs569322852	chr13:39898070-39898071	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
34	rs536893878	chr13:39898071-39898072	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
35	rs149292575	chr13:39898141-39898142	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
36	rs567466929	chr13:39898198-39898199	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
37	rs536524890	chr13:39898263-39898264	Weak transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
38	rs113314875	chr13:39898264-39898265	Weak transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
39	rs370307094	chr13:39898271-39898272	Weak transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
40	rs572913696	chr13:39898346-39898347	Weak transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
41	rs376568821	chr13:39898359-39898360	Weak transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
42	rs17059659	chr13:39898374-39898375	Weak transcription Enhancers	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
43	rs79313815	chr13:39898388-39898389	Weak transcription Enhancers	lncRNA	n/a	Overlapped CNVs	n/a
44	rs544490305	chr13:39898422-39898423	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
45	rs60574634	chr13:39898435-39898436	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
46	rs574814495	chr13:39898438-39898439	Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
47	rs187137659	chr13:39898470-39898471	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs539440466	chr13:39898474-39898475	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs17590635	chr13:39898602-39898603	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
50	rs572886247	chr13:39898627-39898628	Weak transcription	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:101)

Disease	PMID	Source
Cancer	20164920	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	21080181	CNVD
HIV/AIDS	22032296	CNVD
Prostate cancer	16705090	CNVD
High-proliferative meningiomas	17937814	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Intellectual disability	22102821	CNVD
Cancer	20164919	CNVD
Autism	22495311	CNVD
Lung cancer	18438408	CNVD
Chordoma	21602918	CNVD
Bladder cancer	21949216	CNVD
Acute myeloid leukemia	16864856	CNVD
Burkitt''s lymphoma	18698080	CNVD
Cancer	21637783	CNVD
Medulloblastoma	21979893	CNVD
Chronic lymphocytic leukemia	21518781	CNVD
colon cancer	17210682	CNVD
Endometrial cancer	22040021	CNVD
Colorectal cancer	20709793	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	19960244	CNVD
Glioblastoma multiforme	17387387	CNVD
Hepatocellular carcinoma	22174799	CNVD
Ovarian cancer	20844748	CNVD
Malignant mesothelioma	18160781	CNVD
Pleural malignant mesothelioma	18160781	CNVD
Colorectal cancer	19359472	CNVD
Intracranial aneurysm	19064780	CNVD
Breast cancer	19287154	CNVD
Acute myeloid leukemia	18379011	CNVD
Human rectal carcinomas	16397240	CNVD
Olfactory neuroblastoma	18408657	CNVD
Multiple myeloma	17077331	CNVD
Ependymoma	16718352	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Colorectal cancer	16272173	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Squamous cell cancer	20885788	CNVD
Myeloproliferative neoplasm	20015882	CNVD
Thyroid cancer	19087340	CNVD
Gastrointestinal stromal cancer	16982739	CNVD
Breast cancer	16608533	CNVD
Neuroblastoma	18923191	CNVD
Ovarian cancer	22174824	CNVD
Breast cancer	17899364	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Colorectal cancer	16774939	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Breast cancer	17133270	CNVD
Myoepithelioma	18604193	CNVD
small cell lung cancer	20016488	CNVD
Prostate cancer	16573809	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Acute lymphoblastic leukemia	21098271	CNVD
Trisomy	24170809	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Alveolar rhabdomyosarcoma	16790082	CNVD
Breast cancer	21785460	CNVD
Prostate cancer	18632612	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Paraganglioma	21461997	CNVD
Pheochromocytoma	21461997	CNVD
Acute lymphoblastic leukemia	17690704	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
Monoclonal gammopathy of undetermined significance	19135901	CNVD
Prostate cancer	19242612	CNVD
Prostate cancer	17245344	CNVD
Colorectal cancer	21586687	CNVD
Small bowel adenocarcinoma	21586687	CNVD
Retinoblastoma	19183342	CNVD
Malignant peripheral nerve sheath tumor	18522746	CNVD
Developmental delay	21147756	CNVD
Malignant fibrous histiocytomas	21085701	CNVD
Melanoma	18172304	CNVD
Congenital anomalies of the kidney and urinary tract	20467480	CNVD
Chronic lymphocytic leukemia	20421269	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Myelofibrosis	22110671	CNVD
Prostate cancer	17217626	CNVD
Retinoblastoma	21504564	CNVD
Chronic lymphocytic leukemia	21795749	CNVD
Chronic lymphocytic leukemia	17805327	CNVD
Mental retardation	17502991	CNVD
Retinoblastoma	17502991	CNVD
Bipolar disorder	18458673	CNVD
Liposarcoma	21253554	CNVD
T-cell lymphomas	19863542	CNVD
Cervical cancer	21062161	CNVD
microdeletion syndrome	19284877	CNVD
Ovarian cancer	22355333	CNVD
Ewing''s sarcoma	18628472	CNVD
Leukemia	18628472	CNVD
Breast cancer	22522925	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD

Chromatin state (count:140 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:39891000-39899200	Weak transcription	Fetal Heart	heart
2	chr13:39892000-39897200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr13:39892200-39901200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr13:39893000-39898400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr13:39893400-39897600	Enhancers	Adipose Nuclei	Adipose
6	chr13:39893600-39899000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr13:39893800-39899000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr13:39894200-39899000	Weak transcription	Right Ventricle	heart
9	chr13:39894200-39899000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr13:39894400-39899000	Weak transcription	Left Ventricle	heart
11	chr13:39894600-39898800	Weak transcription	Lung	lung
12	chr13:39894600-39899000	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr13:39894800-39897200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr13:39895200-39897200	Weak transcription	Fetal Stomach	stomach
15	chr13:39895400-39899000	Weak transcription	Right Atrium	heart
16	chr13:39895600-39898000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr13:39895800-39897000	Enhancers	Brain Hippocampus Middle	brain
18	chr13:39895800-39897600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr13:39895800-39897800	Enhancers	Brain Substantia Nigra	brain
20	chr13:39896000-39899200	Weak transcription	Fetal Muscle Leg	muscle
21	chr13:39896200-39897200	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr13:39896200-39897800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr13:39896200-39897800	Enhancers	Brain Anterior Caudate	brain
24	chr13:39896400-39897000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr13:39896400-39897600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr13:39896400-39897600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr13:39896600-39897200	Active TSS	Brain Angular Gyrus	brain
28	chr13:39896600-39897200	Weak transcription	Ovary	ovary
29	chr13:39896600-39897400	Enhancers	Aorta	Aorta
30	chr13:39896600-39897400	Enhancers	Brain Cingulate Gyrus	brain
31	chr13:39896600-39897400	Enhancers	Fetal Lung	lung
32	chr13:39896600-39897600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr13:39896600-39897600	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr13:39897000-39897200	Flanking Active TSS	Brain Hippocampus Middle	brain
35	chr13:39897200-39897400	Enhancers	H1 Cell Line	embryonic stem cell
36	chr13:39897200-39897400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr13:39897200-39897400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr13:39897200-39897400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr13:39897200-39897400	Active TSS	Brain Hippocampus Middle	brain
40	chr13:39897200-39897400	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
41	chr13:39897200-39897400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr13:39897200-39897400	Enhancers	Fetal Kidney	kidney
43	chr13:39897200-39897400	Enhancers	Ovary	ovary
44	chr13:39897200-39897400	Enhancers	Sigmoid Colon	Sigmoid Colon
45	chr13:39897200-39897600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr13:39897200-39897600	Enhancers	iPS-18 Cell Line	embryonic stem cell
47	chr13:39897200-39897600	Flanking Active TSS	Brain Angular Gyrus	brain
48	chr13:39897200-39897800	Enhancers	Fetal Stomach	stomach
49	chr13:39897200-39899200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr13:39897400-39897600	Flanking Active TSS	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links