Atlas of Genetics and Cytogenetics in Oncology and Haematology

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LRFN4 (leucine rich repeat and fibronectin type III domain containing 4)

Identity

Alias_symbol (synonym)MGC3103
SALM3.
FIGLER6
Other aliasSALM3
HGNC (Hugo) LRFN4
LocusID (NCBI) 78999
Atlas_Id 68579
Location 11q13.2  [Link to chromosome band 11q13]
Location_base_pair Starts at 66857405 and ends at 66860475 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)

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)LRFN4   28456
Cards
Entrez_Gene (NCBI)LRFN4  78999  leucine rich repeat and fibronectin type III domain containing 4
AliasesFIGLER6; SALM3; SALM3.
GeneCards (Weizmann)LRFN4
Ensembl hg19 (Hinxton)ENSG00000173621 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000173621 [Gene_View]  ENSG00000173621 [Sequence]  chr11:66857405-66860475 [Contig_View]  LRFN4 [Vega]
ICGC DataPortalENSG00000173621
TCGA cBioPortalLRFN4
AceView (NCBI)LRFN4
Genatlas (Paris)LRFN4
WikiGenes78999
SOURCE (Princeton)LRFN4
Genetics Home Reference (NIH)LRFN4
Genomic and cartography
GoldenPath hg38 (UCSC)LRFN4  -     chr11:66857405-66860475 +  11q13.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LRFN4  -     11q13.2   [Description]    (hg19-Feb_2009)
GoldenPathLRFN4 - 11q13.2 [CytoView hg19]  LRFN4 - 11q13.2 [CytoView hg38]
ImmunoBaseENSG00000173621
Mapping of homologs : NCBILRFN4 [Mapview hg19]  LRFN4 [Mapview hg38]
OMIM612810   
Gene and transcription
Genbank (Entrez)AB209005 BC000207 BC007718 BC014040 BC015581
RefSeq transcript (Entrez)NM_001363524 NM_024036
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LRFN4
Cluster EST : UnigeneHs.714189 [ NCBI ]
CGAP (NCI)Hs.714189
Alternative Splicing GalleryENSG00000173621
Gene ExpressionLRFN4 [ NCBI-GEO ]   LRFN4 [ EBI - ARRAY_EXPRESS ]   LRFN4 [ SEEK ]   LRFN4 [ MEM ]
Gene Expression Viewer (FireBrowse)LRFN4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)78999
GTEX Portal (Tissue expression)LRFN4
Human Protein AtlasENSG00000173621-LRFN4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ6PJG9   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ6PJG9  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ6PJG9
Splice isoforms : SwissVarQ6PJG9
PhosPhoSitePlusQ6PJG9
Domaine pattern : Prosite (Expaxy)FN3 (PS50853)    IG_LIKE (PS50835)   
Domains : Interpro (EBI)Cys-rich_flank_reg_C    FN3_dom    FN3_sf    Ig-like_dom    Ig-like_dom_sf    Ig-like_fold    Ig_I-set    Ig_sub    Ig_sub2    Leu-rich_rpt    Leu-rich_rpt_typical-subtyp    LRR_dom_sf   
Domain families : Pfam (Sanger)fn3 (PF00041)    I-set (PF07679)    LRR_8 (PF13855)   
Domain families : Pfam (NCBI)pfam00041    pfam07679    pfam13855   
Domain families : Smart (EMBL)FN3 (SM00060)  IG (SM00409)  IGc2 (SM00408)  LRR_TYP (SM00369)  LRRCT (SM00082)  
Conserved Domain (NCBI)LRFN4
DMDM Disease mutations78999
Blocks (Seattle)LRFN4
SuperfamilyQ6PJG9
Human Protein Atlas [tissue]ENSG00000173621-LRFN4 [tissue]
Peptide AtlasQ6PJG9
HPRD14310
IPIIPI00172530   IPI01024742   IPI00848111   IPI00974443   IPI00449139   
Protein Interaction databases
DIP (DOE-UCLA)Q6PJG9
IntAct (EBI)Q6PJG9
FunCoupENSG00000173621
BioGRIDLRFN4
STRING (EMBL)LRFN4
ZODIACLRFN4
Ontologies - Pathways
QuickGOQ6PJG9
Ontology : AmiGOprotein binding  plasma membrane  cell surface  glutamatergic synapse  GABA-ergic synapse  integral component of postsynaptic density membrane  regulation of postsynaptic density assembly  synaptic membrane adhesion  regulation of presynapse assembly  
Ontology : EGO-EBIprotein binding  plasma membrane  cell surface  glutamatergic synapse  GABA-ergic synapse  integral component of postsynaptic density membrane  regulation of postsynaptic density assembly  synaptic membrane adhesion  regulation of presynapse assembly  
NDEx NetworkLRFN4
Atlas of Cancer Signalling NetworkLRFN4
Wikipedia pathwaysLRFN4
Orthology - Evolution
OrthoDB78999
GeneTree (enSembl)ENSG00000173621
Phylogenetic Trees/Animal Genes : TreeFamLRFN4
HOGENOMQ6PJG9
Homologs : HomoloGeneLRFN4
Homology/Alignments : Family Browser (UCSC)LRFN4
Gene fusions - Rearrangements
Fusion : QuiverLRFN4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLRFN4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LRFN4
dbVarLRFN4
ClinVarLRFN4
1000_GenomesLRFN4 
Exome Variant ServerLRFN4
ExAC (Exome Aggregation Consortium)ENSG00000173621
GNOMAD BrowserENSG00000173621
Varsome BrowserLRFN4
Genetic variants : HAPMAP78999
Genomic Variants (DGV)LRFN4 [DGVbeta]
DECIPHERLRFN4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLRFN4 
Mutations
ICGC Data PortalLRFN4 
TCGA Data PortalLRFN4 
Broad Tumor PortalLRFN4
OASIS PortalLRFN4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLRFN4  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DLRFN4
Mutations and Diseases : HGMDLRFN4
BioMutasearch LRFN4
DgiDB (Drug Gene Interaction Database)LRFN4
DoCM (Curated mutations)LRFN4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LRFN4 (select a term)
intoGenLRFN4
Cancer3DLRFN4(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM612810   
Orphanet
DisGeNETLRFN4
MedgenLRFN4
Genetic Testing Registry LRFN4
NextProtQ6PJG9 [Medical]
TSGene78999
GENETestsLRFN4
Target ValidationLRFN4
Huge Navigator LRFN4 [HugePedia]
snp3D : Map Gene to Disease78999
BioCentury BCIQLRFN4
ClinGenLRFN4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD78999
Chemical/Pharm GKB GenePA134922153
Clinical trialLRFN4
Miscellaneous
canSAR (ICR)LRFN4 (select the gene name)
DataMed IndexLRFN4
Probes
Litterature
PubMed16 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLRFN4
EVEXLRFN4
GoPubMedLRFN4
iHOPLRFN4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Sep 3 15:50:59 CEST 2019
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