Variant report

Variant	esv3358646
Chromosome Location	chr10:98825140-98825478
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:98824817..98826920-chr10:98829119..98831904,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FRAT2-4	chr10:98825270-98825416	NONHSAT015846

Extended variants
information (count: 9 )
Associated
traits (count: 64 )

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs577511712	chr10:98825206-98825207	Weak transcription Strong transcription Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
2	rs570511303	chr10:98825209-98825210	Weak transcription Strong transcription Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
3	rs59453737	chr10:98825239-98825240	Weak transcription Strong transcription Enhancers Bivalent Enhancer	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
4	rs140197789	chr10:98825242-98825243	Weak transcription Strong transcription Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
5	rs143877287	chr10:98825251-98825252	Weak transcription Strong transcription Enhancers Bivalent Enhancer	n/a	n/a	Overlapped CNVs	n/a
6	rs535707811	chr10:98825282-98825283	Weak transcription Strong transcription Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
7	rs41284258	chr10:98825285-98825286	Weak transcription Strong transcription Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
8	rs562382827	chr10:98825381-98825382	Weak transcription Strong transcription Enhancers Bivalent Enhancer	lncRNA	n/a	Overlapped CNVs	n/a
9	rs372738199	chr10:98825463-98825464	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:64)

Disease	PMID	Source
Gastric cancer	17908304	CNVD
Chordoma	21602918	CNVD
Ewing''s sarcoma	21437220	CNVD
Glioblastoma multiforme	21080181	CNVD
Medulloblastoma	21979893	CNVD
Melanoma	18172304	CNVD
Pleomorphic xanthoastrocytoma	20730472	CNVD
Ewing''s sarcoma	17952124	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Acute lymphoblastic leukemia	20724749	CNVD
Autism	22495311	CNVD
Prostate cancer	18632612	CNVD
Cockayne syndrome	18421352	CNVD
Glioblastoma	16823260	CNVD
Medulloblastoma	16968546	CNVD
Neuroblastoma	17533364	CNVD
Squamous cell cancer	21044232	CNVD
Glioma	21971842	CNVD
Cancer	21637783	CNVD
Non-small cell lung cancer	21044232	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Colorectal cancer	20709793	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Liposarcoma	21253554	CNVD
Oligodendroglial tumors	17285580	CNVD
Lung cancer	18438408	CNVD
Medulloblastoma	16783165	CNVD
Breast cancer	21785460	CNVD
Acute myeloid leukemia	20729466	CNVD
Paraganglioma	17535989	CNVD
Gastrointestinal stromal cancer	17535989	CNVD
Pancreatic endocrine tumor	17639061	CNVD
Pulmonary chondroma	17535989	CNVD
Glioblastoma multiforme	17002787	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	17603634	CNVD
Glioblastoma multiforme	17387387	CNVD
Breast cancer	21364760	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Wilms tumour	21544195	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Urothelial carcinoma	21177765	CNVD
Prostate cancer	16573809	CNVD
Breast cancer	16608533	CNVD
Glioblastoma multiforme	22286061	CNVD
small cell lung cancer	20016488	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Lung cancer	16773561	CNVD
Colorectal cancer	16912164	CNVD
Myelofibrosis	22110671	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Autosomal dominant partial epilepsy	18472482	CNVD
Breast cancer	16397240	CNVD
Myxofibrosarcoma	16751306	CNVD
Breast cancer	17393978	CNVD
Ovarian cancer	21720365	CNVD
Pancreatic cancer	17952125	CNVD
Breast cancer	22522925	CNVD
Non-syndromic sensorineural hearing loss	17122850	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98797800-98830800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr10:98812600-98826600	Strong transcription	Fetal Thymus	thymus
3	chr10:98813400-98826400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr10:98819000-98826800	Weak transcription	Brain Angular Gyrus	brain
5	chr10:98819400-98838400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr10:98819800-98826200	Weak transcription	Brain Anterior Caudate	brain
7	chr10:98820400-98829400	Weak transcription	Thymus	Thymus
8	chr10:98821800-98828600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr10:98822200-98826400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr10:98822400-98825800	Strong transcription	Brain Germinal Matrix	brain
11	chr10:98822400-98826600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr10:98822800-98827800	Weak transcription	Fetal Brain Female	brain
13	chr10:98823000-98826200	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr10:98823000-98826200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr10:98823200-98826200	Weak transcription	Fetal Brain Male	brain
16	chr10:98823400-98825200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
17	chr10:98823600-98826800	Weak transcription	Psoas Muscle	Psoas
18	chr10:98823800-98825200	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr10:98824200-98825200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr10:98824200-98827200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr10:98824400-98825400	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr10:98824600-98825400	Weak transcription	Hela-S3	cervix
23	chr10:98824600-98826600	Weak transcription	Pancreas	Pancrea
24	chr10:98825200-98826000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr10:98825400-98825600	Enhancers	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links