Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

SHROOM1 (shroom family member 1)

Identity

Alias_symbol (synonym)APXL2
KIAA1960
Other alias
HGNC (Hugo) SHROOM1
LocusID (NCBI) 134549
Atlas_Id 73234
Location 5q31.1  [Link to chromosome band 5q31]
Location_base_pair Starts at 132822141 and ends at 132830898 bp from pter ( according to hg38-Dec_2013)

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)SHROOM1   24084
Cards
Entrez_Gene (NCBI)SHROOM1  134549  shroom family member 1
AliasesAPXL2
GeneCards (Weizmann)SHROOM1
Ensembl hg19 (Hinxton)ENSG00000164403 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000164403 [Gene_View]  chr5:132822141-132830898 [Contig_View]  SHROOM1 [Vega]
ICGC DataPortalENSG00000164403
TCGA cBioPortalSHROOM1
AceView (NCBI)SHROOM1
Genatlas (Paris)SHROOM1
WikiGenes134549
SOURCE (Princeton)SHROOM1
Genetics Home Reference (NIH)SHROOM1
Genomic and cartography
GoldenPath hg38 (UCSC)SHROOM1  -     chr5:132822141-132830898 -  5q31.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SHROOM1  -     5q31.1   [Description]    (hg19-Feb_2009)
EnsemblSHROOM1 - 5q31.1 [CytoView hg19]  SHROOM1 - 5q31.1 [CytoView hg38]
Mapping of homologs : NCBISHROOM1 [Mapview hg19]  SHROOM1 [Mapview hg38]
OMIM611179   
Gene and transcription
Genbank (Entrez)AB075840 AF314142 BC040980 BC104914 BC104916
RefSeq transcript (Entrez)NM_001172700 NM_133456
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SHROOM1
Cluster EST : UnigeneHs.519574 [ NCBI ]
CGAP (NCI)Hs.519574
Alternative Splicing GalleryENSG00000164403
Gene ExpressionSHROOM1 [ NCBI-GEO ]   SHROOM1 [ EBI - ARRAY_EXPRESS ]   SHROOM1 [ SEEK ]   SHROOM1 [ MEM ]
Gene Expression Viewer (FireBrowse)SHROOM1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)134549
GTEX Portal (Tissue expression)SHROOM1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ2M3G4   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ2M3G4  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ2M3G4
Splice isoforms : SwissVarQ2M3G4
PhosPhoSitePlusQ2M3G4
Domaine pattern : Prosite (Expaxy)ASD1 (PS51306)    ASD2 (PS51307)   
Domains : Interpro (EBI)ASD1_dom    ASD2_dom    Shroom_fam   
Domain families : Pfam (Sanger)ASD1 (PF08688)    ASD2 (PF08687)   
Domain families : Pfam (NCBI)pfam08688    pfam08687   
Conserved Domain (NCBI)SHROOM1
DMDM Disease mutations134549
Blocks (Seattle)SHROOM1
SuperfamilyQ2M3G4
Human Protein AtlasENSG00000164403
Peptide AtlasQ2M3G4
HPRD10655
IPIIPI00328184   IPI00479091   IPI00657854   IPI00657668   
Protein Interaction databases
DIP (DOE-UCLA)Q2M3G4
IntAct (EBI)Q2M3G4
FunCoupENSG00000164403
BioGRIDSHROOM1
STRING (EMBL)SHROOM1
ZODIACSHROOM1
Ontologies - Pathways
QuickGOQ2M3G4
Ontology : AmiGOcell morphogenesis  cytoplasm  microtubule  myosin II complex  actin filament binding  actin filament bundle assembly  
Ontology : EGO-EBIcell morphogenesis  cytoplasm  microtubule  myosin II complex  actin filament binding  actin filament bundle assembly  
NDEx NetworkSHROOM1
Atlas of Cancer Signalling NetworkSHROOM1
Wikipedia pathwaysSHROOM1
Orthology - Evolution
OrthoDB134549
GeneTree (enSembl)ENSG00000164403
Phylogenetic Trees/Animal Genes : TreeFamSHROOM1
HOVERGENQ2M3G4
HOGENOMQ2M3G4
Homologs : HomoloGeneSHROOM1
Homology/Alignments : Family Browser (UCSC)SHROOM1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSHROOM1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SHROOM1
dbVarSHROOM1
ClinVarSHROOM1
1000_GenomesSHROOM1 
Exome Variant ServerSHROOM1
ExAC (Exome Aggregation Consortium)SHROOM1 (select the gene name)
Genetic variants : HAPMAP134549
Genomic Variants (DGV)SHROOM1 [DGVbeta]
DECIPHERSHROOM1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSHROOM1 
Mutations
ICGC Data PortalSHROOM1 
TCGA Data PortalSHROOM1 
Broad Tumor PortalSHROOM1
OASIS PortalSHROOM1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSHROOM1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSHROOM1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SHROOM1
DgiDB (Drug Gene Interaction Database)SHROOM1
DoCM (Curated mutations)SHROOM1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SHROOM1 (select a term)
intoGenSHROOM1
Cancer3DSHROOM1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM611179   
Orphanet
MedgenSHROOM1
Genetic Testing Registry SHROOM1
NextProtQ2M3G4 [Medical]
TSGene134549
GENETestsSHROOM1
Target ValidationSHROOM1
Huge Navigator SHROOM1 [HugePedia]
snp3D : Map Gene to Disease134549
BioCentury BCIQSHROOM1
ClinGenSHROOM1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD134549
Chemical/Pharm GKB GenePA147357345
Clinical trialSHROOM1
Miscellaneous
canSAR (ICR)SHROOM1 (select the gene name)
Probes
Litterature
PubMed8 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSHROOM1
EVEXSHROOM1
GoPubMedSHROOM1
iHOPSHROOM1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed May 31 15:40:43 CEST 2017

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.