Variant report

Variant	nsv982202
Chromosome Location	chr9:21420183-21420683
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr9:21420220-21420370	GM12875	blood:	n/a	n/a
2	CTCF	chr9:21420260-21420410	GM12878	blood:	n/a	n/a
3	CTCF	chr9:21420320-21420470	A549	lung:	n/a	n/a
4	POLR2A	chr9:21420433-21420490	Hela-S3	cervix:	n/a	n/a
5	POLR2A	chr9:21420405-21420533	A549	lung:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-IFNA8-2	chr9:21420233-21420812	NONHSAT130384

Variant related genes	Relation type
IFNWP2	TF binding region

Extended variants
information (count: 23 )
Associated
traits (count: 152 )

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs531889156	chr9:21420189-21420190	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
2	rs552073572	chr9:21420210-21420211	Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
3	rs187954185	chr9:21420234-21420235	Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
4	rs139574910	chr9:21420235-21420236	Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
5	rs527689274	chr9:21420247-21420248	Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
6	rs142866724	chr9:21420314-21420315	Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
7	rs77417532	chr9:21420344-21420345	Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
8	rs530177072	chr9:21420345-21420346	Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
9	rs116570402	chr9:21420369-21420370	Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
10	rs192041624	chr9:21420372-21420373	Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
11	rs538404494	chr9:21420388-21420389	Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
12	rs537712479	chr9:21420404-21420405	Enhancers Bivalent Enhancer Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
13	rs556751886	chr9:21420443-21420444	Enhancers Bivalent Enhancer Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
14	rs532576939	chr9:21420446-21420447	Enhancers Bivalent Enhancer Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
15	rs371955631	chr9:21420461-21420462	Enhancers Bivalent Enhancer Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
16	rs558039230	chr9:21420482-21420483	Enhancers Bivalent Enhancer Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
17	rs527613547	chr9:21420535-21420536	Enhancers Bivalent Enhancer Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
18	rs375067502	chr9:21420554-21420555	Enhancers Bivalent Enhancer Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
19	rs533766003	chr9:21420607-21420608	Bivalent Enhancer Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
20	rs553842355	chr9:21420644-21420645	Bivalent Enhancer Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
21	rs573763166	chr9:21420652-21420653	Bivalent Enhancer Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
22	rs542735884	chr9:21420673-21420674	Bivalent Enhancer Enhancers Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
23	rs1332179	chr9:21420677-21420678	Bivalent Enhancer Enhancers Weak transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance

Variant related diseases (count:152)

Disease	PMID	Source
Glioblastoma multiforme	21080181	CNVD
Medulloblastoma	21979893	CNVD
Breast cancer	16608533	CNVD
Hodgkin''s lymphoma	18641027	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Breast cancer	16272173	CNVD
Hepatocellular carcinoma	16750200	CNVD
Breast cancer	17133270	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Cervical cancer	21063398	CNVD
Retinoblastoma	22278416	CNVD
Splenic marginal zone lymphoma	18492102	CNVD
Melanoma	18172304	CNVD
Biliary cancer	19435499	CNVD
Gastric cancer	21586687	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Myopathy	18421352	CNVD
Neuroblastoma	18664255	CNVD
Acute lymphoblastic leukemia	18957548	CNVD
Myeloproliferative neoplasm	17564968	CNVD
Malignant meningioma	17937814	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Glioma	21971842	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Ewing''s sarcoma	21437220	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	17603634	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	19960244	CNVD
Glioblastoma multiforme	17387387	CNVD
Hepatocellular carcinoma	22174799	CNVD
Oligodendroglial tumors	17285580	CNVD
Cutaneous squamous cell carcinomas	19131950	CNVD
Small bowel adenocarcinoma	21586687	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Chordoma	18071362	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Chordoma	21602918	CNVD
Renal cell carcinoma	18592004	CNVD
Developmental delay	19490664	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Pleomorphic xanthoastrocytoma	20730472	CNVD
microdeletion syndrome	16199537	CNVD
Non-syndromic sensorineural hearing loss	21987784	CNVD
Cancer	20164919	CNVD
Ovarian cancer	21720365	CNVD
Non-syndromic sensorineural hearing loss	21030649	CNVD
small cell lung cancer	20016488	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Lung cancer	18438408	CNVD
Urothelial carcinoma	21177765	CNVD
Oral cancer	21386901	CNVD
lymphocytic leukemia	21291569	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Chronic myeloid leukemia	21384125	CNVD
Breast cancer	21785460	CNVD
Esophageal adenocarcinoma	19417022	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Breast cancer	21858162	CNVD
Renal cell carcinoma	21668985	CNVD
Myelodysplastic syndrome	21251322	CNVD
Autism	22495311	CNVD
Hepatocellular carcinoma	18803288	CNVD
Metanephric adenoma	20802469	CNVD
Developmental delay	21147756	CNVD
Pilocytic astrocytoma	18670637	CNVD
Acute lymphoblastic leukemia	17690704	CNVD
Melanoma	22183965	CNVD
Malignant peripheral nerve sheath tumor	18522746	CNVD
Non-small cell lung cancer	19010865	CNVD
Myoepithelioma	18604193	CNVD
Cancer	22183965	CNVD
Glioblastoma multiforme	21569311	CNVD
Myelofibrosis	22110671	CNVD
Ewing''s sarcoma	22429812	CNVD
Neuroblastoma	21899760	CNVD
Glioblastoma multiforme	19435819	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Cutaneous T-cell lymphoma	21881587	CNVD
Glioblastoma multiforme	22291905	CNVD
Lung cancer	21911935	CNVD
Primary central nervous system lymphoma	21088137	CNVD
head and neck squamous cell carcinoma	21798897	CNVD
Cancer	21253487	CNVD
Glioblastoma multiforme	22286061	CNVD
Intracranial ependymoma	16609018	CNVD
Gastrointestinal stromal cancer	16982739	CNVD
Glioblastoma multiforme	21922591	CNVD
Acute lymphoblastic leukemia	17443227	CNVD
Barrett''s adenocarcinoma	18663352	CNVD
T-cell acute lymphoblastic leukemia	19406988	CNVD
Urothelial cell carcinoma	18451213	CNVD
Glioma	17123091	CNVD
Mental retardation	17124404	CNVD
Acute lymphoblastic leukemia	19100363	CNVD
Acute lymphoblastic leukemia	18768390	CNVD
Leukemia	19602459	CNVD
Acute monocytic leukemia	16498392	CNVD
Esophageal squamous carcinoma	18405350	CNVD
Malignant mesothelioma	18160781	CNVD
Pleural malignant mesothelioma	18160781	CNVD
Leukemia	18688285	CNVD
T-cell acute lymphoblastic leukemia	18185524	CNVD
Acute myeloid leukemia	19651601	CNVD
Coronary Disease	20032323	CNVD
Squamous cell cancer	20885788	CNVD
Hirschsprung''s Disease	21712996	CNVD
Cancer	21732550	CNVD
Gastric cancer	22539939	CNVD
Cancer	21183584	CNVD
T-cell lymphomas	19863542	CNVD
Diffuse large b-cell lymphoma	18287131	CNVD
Metastatic melanoma	18483359	CNVD
Non-small cell lung cancer	20864512	CNVD
Cervical cancer	21062161	CNVD
Acute myeloid leukemia	16864856	CNVD
Glioblastoma	17090523	CNVD
Lung cancer	16773561	CNVD
Adenoid cystic carcinoma	17372589	CNVD
Colorectal cancer	16774939	CNVD
Bladder cancer	19088036	CNVD
Colorectal cancer	16272173	CNVD
Melanoma	16977458	CNVD
Glioblastoma multiforme	17369134	CNVD
Chagasic megaesophagus	20163722	CNVD
Melanoma	19566914	CNVD
Squamous cell cancer	19047905	CNVD
Lung adenocarcinoma	19525976	CNVD
Lung cancer	19525976	CNVD
Hodgkin''s lymphoma	18179710	CNVD
Glioma	20126413	CNVD
Melanoma	17363583	CNVD
Glioblastoma multiforme	19115005	CNVD
Glioblastoma multiforme	21525872	CNVD
Glioblastoma multiforme	21138945	CNVD
Adenoid cystic carcinoma	18332873	CNVD
Breast cancer	21364760	CNVD
Cancer	20581869	CNVD
Multiple myeloma	17550852	CNVD
Intellectual disability	22102821	CNVD
Oral cancer	22144094	CNVD
Lung cancer	21569311	CNVD
Epilepsy	20502679	CNVD
Barrett''s syndrome	19417022	CNVD
Pancreatic cancer	21811587	CNVD
Autism	20858261	CNVD
Epilepsy	20858261	CNVD
Mental retardation	20858261	CNVD

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21414800-21420200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:21415800-21420200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr9:21418800-21420400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr9:21419000-21420600	Enhancers	Muscle Satellite Cultured Cells	--
5	chr9:21419600-21420200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr9:21420200-21420600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr9:21420200-21420800	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr9:21420200-21420800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr9:21420200-21421400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr9:21420400-21421200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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