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EFNB2 (ephrin B2)

Identity

Alias_namesEPLG5
ephrin-B2
Alias_symbol (synonym)LERK5
Htk-L
HTKL
MGC126226
MGC126227
MGC126228
Other alias
HGNC (Hugo) EFNB2
LocusID (NCBI) 1948
Atlas_Id 40416
Location 13q33.3  [Link to chromosome band 13q33]
Location_base_pair Starts at 106489731 and ends at 106535040 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
CDH1 (16q22.1) / EFNB2 (13q33.3)EFNB2 (13q33.3) / ATIC (2q35)EFNB2 (13q33.3) / EFNB2 (13q33.3)
PSPH (7p11.2) / EFNB2 (13q33.3)TRA () / EFNB2 (13q33.3)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)EFNB2   3227
Cards
Entrez_Gene (NCBI)EFNB2  1948  ephrin B2
AliasesEPLG5; HTKL; Htk-L; LERK5
GeneCards (Weizmann)EFNB2
Ensembl hg19 (Hinxton)ENSG00000125266 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000125266 [Gene_View]  ENSG00000125266 [Sequence]  chr13:106489731-106535040 [Contig_View]  EFNB2 [Vega]
ICGC DataPortalENSG00000125266
TCGA cBioPortalEFNB2
AceView (NCBI)EFNB2
Genatlas (Paris)EFNB2
WikiGenes1948
SOURCE (Princeton)EFNB2
Genetics Home Reference (NIH)EFNB2
Genomic and cartography
GoldenPath hg38 (UCSC)EFNB2  -     chr13:106489731-106535040 -  13q33.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)EFNB2  -     13q33.3   [Description]    (hg19-Feb_2009)
EnsemblEFNB2 - 13q33.3 [CytoView hg19]  EFNB2 - 13q33.3 [CytoView hg38]
Mapping of homologs : NCBIEFNB2 [Mapview hg19]  EFNB2 [Mapview hg38]
OMIM600527   
Gene and transcription
Genbank (Entrez)BC069342 BC074856 BC074857 BC105955 BC105956
RefSeq transcript (Entrez)NM_004093
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)EFNB2
Cluster EST : UnigeneHs.149239 [ NCBI ]
CGAP (NCI)Hs.149239
Alternative Splicing GalleryENSG00000125266
Gene ExpressionEFNB2 [ NCBI-GEO ]   EFNB2 [ EBI - ARRAY_EXPRESS ]   EFNB2 [ SEEK ]   EFNB2 [ MEM ]
Gene Expression Viewer (FireBrowse)EFNB2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)1948
GTEX Portal (Tissue expression)EFNB2
Human Protein AtlasENSG00000125266-EFNB2 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP52799   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP52799  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP52799
Splice isoforms : SwissVarP52799
PhosPhoSitePlusP52799
Domaine pattern : Prosite (Expaxy)EPHRIN_RBD_1 (PS01299)    EPHRIN_RBD_2 (PS51551)   
Domains : Interpro (EBI)Cupredoxin    Ephrin    Ephrin-B_Ecto    Ephrin_CS    Ephrin_RBD   
Domain families : Pfam (Sanger)Ephrin (PF00812)   
Domain families : Pfam (NCBI)pfam00812   
Domain structure : Prodom (Prabi Lyon)Ephrin (PD002533)   
Conserved Domain (NCBI)EFNB2
DMDM Disease mutations1948
Blocks (Seattle)EFNB2
PDB (SRS)2HLE    2I85    2VSK    2VSM    2WO2    3GXU    4UF7   
PDB (PDBSum)2HLE    2I85    2VSK    2VSM    2WO2    3GXU    4UF7   
PDB (IMB)2HLE    2I85    2VSK    2VSM    2WO2    3GXU    4UF7   
PDB (RSDB)2HLE    2I85    2VSK    2VSM    2WO2    3GXU    4UF7   
Structural Biology KnowledgeBase2HLE    2I85    2VSK    2VSM    2WO2    3GXU    4UF7   
SCOP (Structural Classification of Proteins)2HLE    2I85    2VSK    2VSM    2WO2    3GXU    4UF7   
CATH (Classification of proteins structures)2HLE    2I85    2VSK    2VSM    2WO2    3GXU    4UF7   
SuperfamilyP52799
Human Protein Atlas [tissue]ENSG00000125266-EFNB2 [tissue]
Peptide AtlasP52799
HPRD02754
IPIIPI00005126   IPI00552558   
Protein Interaction databases
DIP (DOE-UCLA)P52799
IntAct (EBI)P52799
FunCoupENSG00000125266
BioGRIDEFNB2
STRING (EMBL)EFNB2
ZODIACEFNB2
Ontologies - Pathways
QuickGOP52799
Ontology : AmiGOvirus receptor activity  lymph vessel development  cell migration involved in sprouting angiogenesis  protein tyrosine kinase activity  protein binding  plasma membrane  plasma membrane  plasma membrane  integral component of plasma membrane  focal adhesion  cell adhesion  cell-cell signaling  axon guidance  positive regulation of cell proliferation  anatomical structure morphogenesis  animal organ morphogenesis  negative regulation of keratinocyte proliferation  negative regulation of neuron projection development  peptidyl-tyrosine phosphorylation  T cell costimulation  viral entry into host cell  ephrin receptor binding  ephrin receptor binding  ephrin receptor signaling pathway  ephrin receptor signaling pathway  ephrin receptor signaling pathway  blood vessel morphogenesis  venous blood vessel morphogenesis  regulation of chemotaxis  nephric duct morphogenesis  Schaffer collateral - CA1 synapse  glutamatergic synapse  presynapse assembly  integral component of presynaptic membrane  integral component of postsynaptic density membrane  regulation of postsynaptic membrane neurotransmitter receptor levels  regulation of postsynaptic neurotransmitter receptor internalization  positive regulation of neuron death  positive regulation of aorta morphogenesis  positive regulation of cardiac muscle cell differentiation  
Ontology : EGO-EBIvirus receptor activity  lymph vessel development  cell migration involved in sprouting angiogenesis  protein tyrosine kinase activity  protein binding  plasma membrane  plasma membrane  plasma membrane  integral component of plasma membrane  focal adhesion  cell adhesion  cell-cell signaling  axon guidance  positive regulation of cell proliferation  anatomical structure morphogenesis  animal organ morphogenesis  negative regulation of keratinocyte proliferation  negative regulation of neuron projection development  peptidyl-tyrosine phosphorylation  T cell costimulation  viral entry into host cell  ephrin receptor binding  ephrin receptor binding  ephrin receptor signaling pathway  ephrin receptor signaling pathway  ephrin receptor signaling pathway  blood vessel morphogenesis  venous blood vessel morphogenesis  regulation of chemotaxis  nephric duct morphogenesis  Schaffer collateral - CA1 synapse  glutamatergic synapse  presynapse assembly  integral component of presynaptic membrane  integral component of postsynaptic density membrane  regulation of postsynaptic membrane neurotransmitter receptor levels  regulation of postsynaptic neurotransmitter receptor internalization  positive regulation of neuron death  positive regulation of aorta morphogenesis  positive regulation of cardiac muscle cell differentiation  
Pathways : KEGGAxon guidance   
NDEx NetworkEFNB2
Atlas of Cancer Signalling NetworkEFNB2
Wikipedia pathwaysEFNB2
Orthology - Evolution
OrthoDB1948
GeneTree (enSembl)ENSG00000125266
Phylogenetic Trees/Animal Genes : TreeFamEFNB2
HOVERGENP52799
HOGENOMP52799
Homologs : HomoloGeneEFNB2
Homology/Alignments : Family Browser (UCSC)EFNB2
Gene fusions - Rearrangements
Fusion : QuiverEFNB2
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerEFNB2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)EFNB2
dbVarEFNB2
ClinVarEFNB2
1000_GenomesEFNB2 
Exome Variant ServerEFNB2
ExAC (Exome Aggregation Consortium)ENSG00000125266
GNOMAD BrowserENSG00000125266
Varsome BrowserEFNB2
Genetic variants : HAPMAP1948
Genomic Variants (DGV)EFNB2 [DGVbeta]
DECIPHEREFNB2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisEFNB2 
Mutations
ICGC Data PortalEFNB2 
TCGA Data PortalEFNB2 
Broad Tumor PortalEFNB2
OASIS PortalEFNB2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICEFNB2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDEFNB2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch EFNB2
DgiDB (Drug Gene Interaction Database)EFNB2
DoCM (Curated mutations)EFNB2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)EFNB2 (select a term)
intoGenEFNB2
Cancer3DEFNB2(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600527   
Orphanet
DisGeNETEFNB2
MedgenEFNB2
Genetic Testing Registry EFNB2
NextProtP52799 [Medical]
TSGene1948
GENETestsEFNB2
Target ValidationEFNB2
Huge Navigator EFNB2 [HugePedia]
snp3D : Map Gene to Disease1948
BioCentury BCIQEFNB2
ClinGenEFNB2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD1948
Chemical/Pharm GKB GenePA27662
Clinical trialEFNB2
Miscellaneous
canSAR (ICR)EFNB2 (select the gene name)
Probes
Litterature
PubMed134 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineEFNB2
EVEXEFNB2
GoPubMedEFNB2
iHOPEFNB2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 6 11:04:00 CET 2018

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