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SHROOM3 (shroom family member 3)

Identity

Alias_symbol (synonym)ShrmL
SHRM
KIAA1481
APXL3
Other aliasMSTP013
HGNC (Hugo) SHROOM3
LocusID (NCBI) 57619
Atlas_Id 73236
Location 4q21.1  [Link to chromosome band 4q21]
Location_base_pair Starts at 77356253 and ends at 77704405 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
BMP2K (4q21.21) / SHROOM3 (4q21.1)FRAS1 (4q21.21) / SHROOM3 (4q21.1)NOLC1 (10q24.32) / SHROOM3 (4q21.1)
SEPT11 (4q21.1) / SHROOM3 (4q21.1)SHROOM3 (4q21.1) / ASAH1 (8p22)SHROOM3 (4q21.1) / CCNI (4q21.1)
SHROOM3 (4q21.1) / FAM47E (4q21.1)SHROOM3 (4q21.1) / SHROOM3 (4q21.1)FRAS1 SHROOM3
BMP2K SHROOM3

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)SHROOM3   30422
Cards
Entrez_Gene (NCBI)SHROOM3  57619  shroom family member 3
AliasesAPXL3; MSTP013; SHRM; ShrmL
GeneCards (Weizmann)SHROOM3
Ensembl hg19 (Hinxton)ENSG00000138771 [Gene_View]  chr4:77356253-77704405 [Contig_View]  SHROOM3 [Vega]
Ensembl hg38 (Hinxton)ENSG00000138771 [Gene_View]  chr4:77356253-77704405 [Contig_View]  SHROOM3 [Vega]
ICGC DataPortalENSG00000138771
TCGA cBioPortalSHROOM3
AceView (NCBI)SHROOM3
Genatlas (Paris)SHROOM3
WikiGenes57619
SOURCE (Princeton)SHROOM3
Genetics Home Reference (NIH)SHROOM3
Genomic and cartography
GoldenPath hg19 (UCSC)SHROOM3  -     chr4:77356253-77704405 +  4q21.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SHROOM3  -     4q21.1   [Description]    (hg38-Dec_2013)
EnsemblSHROOM3 - 4q21.1 [CytoView hg19]  SHROOM3 - 4q21.1 [CytoView hg38]
Mapping of homologs : NCBISHROOM3 [Mapview hg19]  SHROOM3 [Mapview hg38]
OMIM604570   
Gene and transcription
Genbank (Entrez)AB040914 AB055660 AF109367 AK027744 AK055294
RefSeq transcript (Entrez)NM_020859
RefSeq genomic (Entrez)NC_000004 NC_018915 NG_028077 NT_016354 NW_004929320
Consensus coding sequences : CCDS (NCBI)SHROOM3
Cluster EST : UnigeneHs.702168 [ NCBI ]
CGAP (NCI)Hs.702168
Alternative Splicing GalleryENSG00000138771
Gene ExpressionSHROOM3 [ NCBI-GEO ]   SHROOM3 [ EBI - ARRAY_EXPRESS ]   SHROOM3 [ SEEK ]   SHROOM3 [ MEM ]
Gene Expression Viewer (FireBrowse)SHROOM3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)57619
GTEX Portal (Tissue expression)SHROOM3
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8TF72   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8TF72  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8TF72
Splice isoforms : SwissVarQ8TF72
PhosPhoSitePlusQ8TF72
Domaine pattern : Prosite (Expaxy)ASD1 (PS51306)    ASD2 (PS51307)    PDZ (PS50106)   
Domains : Interpro (EBI)ASD1_dom    ASD2_dom    PDZ    Shrm3    Shroom_fam   
Domain families : Pfam (Sanger)ASD1 (PF08688)    ASD2 (PF08687)    PDZ (PF00595)   
Domain families : Pfam (NCBI)pfam08688    pfam08687    pfam00595   
Domain families : Smart (EMBL)PDZ (SM00228)  
Conserved Domain (NCBI)SHROOM3
DMDM Disease mutations57619
Blocks (Seattle)SHROOM3
SuperfamilyQ8TF72
Human Protein AtlasENSG00000138771
Peptide AtlasQ8TF72
HPRD07053
IPIIPI00152881   IPI01018742   IPI00935334   IPI00953698   IPI00386863   IPI00983067   
Protein Interaction databases
DIP (DOE-UCLA)Q8TF72
IntAct (EBI)Q8TF72
FunCoupENSG00000138771
BioGRIDSHROOM3
STRING (EMBL)SHROOM3
ZODIACSHROOM3
Ontologies - Pathways
QuickGOQ8TF72
Ontology : AmiGOcell morphogenesis  neural tube closure  columnar/cuboidal epithelial cell development  cytoplasm  cytoskeleton  microtubule  adherens junction  pattern specification process  regulation of cell shape  apical plasma membrane  actin cytoskeleton organization  apical junction complex  cellular pigment accumulation  apical protein localization  actin filament binding  
Ontology : EGO-EBIcell morphogenesis  neural tube closure  columnar/cuboidal epithelial cell development  cytoplasm  cytoskeleton  microtubule  adherens junction  pattern specification process  regulation of cell shape  apical plasma membrane  actin cytoskeleton organization  apical junction complex  cellular pigment accumulation  apical protein localization  actin filament binding  
NDEx NetworkSHROOM3
Atlas of Cancer Signalling NetworkSHROOM3
Wikipedia pathwaysSHROOM3
Orthology - Evolution
OrthoDB57619
GeneTree (enSembl)ENSG00000138771
Phylogenetic Trees/Animal Genes : TreeFamSHROOM3
HOVERGENQ8TF72
HOGENOMQ8TF72
Homologs : HomoloGeneSHROOM3
Homology/Alignments : Family Browser (UCSC)SHROOM3
Gene fusions - Rearrangements
Fusion: TCGAFRAS1 SHROOM3
Fusion: TCGABMP2K SHROOM3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSHROOM3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SHROOM3
dbVarSHROOM3
ClinVarSHROOM3
1000_GenomesSHROOM3 
Exome Variant ServerSHROOM3
ExAC (Exome Aggregation Consortium)SHROOM3 (select the gene name)
Genetic variants : HAPMAP57619
Genomic Variants (DGV)SHROOM3 [DGVbeta]
DECIPHER (Syndromes)4:77356253-77704405  ENSG00000138771
CONAN: Copy Number AnalysisSHROOM3 
Mutations
ICGC Data PortalSHROOM3 
TCGA Data PortalSHROOM3 
Broad Tumor PortalSHROOM3
OASIS PortalSHROOM3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSHROOM3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSHROOM3
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 SHROOM3
DgiDB (Drug Gene Interaction Database)SHROOM3
DoCM (Curated mutations)SHROOM3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SHROOM3 (select a term)
intoGenSHROOM3
Cancer3DSHROOM3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM604570   
Orphanet
MedgenSHROOM3
Genetic Testing Registry SHROOM3
NextProtQ8TF72 [Medical]
TSGene57619
GENETestsSHROOM3
Huge Navigator SHROOM3 [HugePedia]
snp3D : Map Gene to Disease57619
BioCentury BCIQSHROOM3
ClinGenSHROOM3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD57619
Chemical/Pharm GKB GenePA147357295
Clinical trialSHROOM3
Miscellaneous
canSAR (ICR)SHROOM3 (select the gene name)
Probes
Litterature
PubMed28 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSHROOM3
EVEXSHROOM3
GoPubMedSHROOM3
iHOPSHROOM3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Mar 14 12:43:10 CET 2017

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