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ATG4D (autophagy related 4D cysteine peptidase)

Identity

Alias_namesAUTL4
APG4D
AUT-like 4, cysteine endopeptidase (S. cerevisiae)
APG4 autophagy 4 homolog D (S. cerevisiae)
ATG4 autophagy related 4 homolog D (S. cerevisiae)
autophagy related 4D, cysteine peptidase
Alias_symbol (synonym)APG4-D
Other alias
HGNC (Hugo) ATG4D
LocusID (NCBI) 84971
Atlas_Id 674
Location 19p13.2  [Link to chromosome band 19p13]
Location_base_pair Starts at 10543894 and ends at 10553423 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)
ATG4D (19p13.2) / C4orf22 (4q21.21)ATG4D (19p13.2) / UHRF1 (19p13.3)ATG4D 19p13.2 / UHRF1 19p13.3

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)ATG4D   20789
Cards
Entrez_Gene (NCBI)ATG4D  84971  autophagy related 4D cysteine peptidase
AliasesAPG4-D; APG4D; AUTL4
GeneCards (Weizmann)ATG4D
Ensembl hg19 (Hinxton)ENSG00000130734 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000130734 [Gene_View]  chr19:10543894-10553423 [Contig_View]  ATG4D [Vega]
ICGC DataPortalENSG00000130734
TCGA cBioPortalATG4D
AceView (NCBI)ATG4D
Genatlas (Paris)ATG4D
WikiGenes84971
SOURCE (Princeton)ATG4D
Genetics Home Reference (NIH)ATG4D
Genomic and cartography
GoldenPath hg38 (UCSC)ATG4D  -     chr19:10543894-10553423 +  19p13.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)ATG4D  -     19p13.2   [Description]    (hg19-Feb_2009)
EnsemblATG4D - 19p13.2 [CytoView hg19]  ATG4D - 19p13.2 [CytoView hg38]
Mapping of homologs : NCBIATG4D [Mapview hg19]  ATG4D [Mapview hg38]
OMIM611340   
Gene and transcription
Genbank (Entrez)AJ312332 AK056210 AK223383 AK294676 AK314712
RefSeq transcript (Entrez)NM_001281504 NM_032885
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)ATG4D
Cluster EST : UnigeneHs.512799 [ NCBI ]
CGAP (NCI)Hs.512799
Alternative Splicing GalleryENSG00000130734
Gene ExpressionATG4D [ NCBI-GEO ]   ATG4D [ EBI - ARRAY_EXPRESS ]   ATG4D [ SEEK ]   ATG4D [ MEM ]
Gene Expression Viewer (FireBrowse)ATG4D [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)84971
GTEX Portal (Tissue expression)ATG4D
Human Protein AtlasENSG00000130734-ATG4D [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ86TL0   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ86TL0  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ86TL0
Splice isoforms : SwissVarQ86TL0
Catalytic activity : Enzyme3.4.22.- [ Enzyme-Expasy ]   3.4.22.-3.4.22.- [ IntEnz-EBI ]   3.4.22.- [ BRENDA ]   3.4.22.- [ KEGG ]   
PhosPhoSitePlusQ86TL0
Domains : Interpro (EBI)Peptidase_C54   
Domain families : Pfam (Sanger)Peptidase_C54 (PF03416)   
Domain families : Pfam (NCBI)pfam03416   
Conserved Domain (NCBI)ATG4D
DMDM Disease mutations84971
Blocks (Seattle)ATG4D
SuperfamilyQ86TL0
Human Protein Atlas [tissue]ENSG00000130734-ATG4D [tissue]
Peptide AtlasQ86TL0
HPRD07005
IPIIPI00328573   IPI00922870   IPI01010164   
Protein Interaction databases
DIP (DOE-UCLA)Q86TL0
IntAct (EBI)Q86TL0
FunCoupENSG00000130734
BioGRIDATG4D
STRING (EMBL)ATG4D
ZODIACATG4D
Ontologies - Pathways
QuickGOQ86TL0
Ontology : AmiGOautophagosome assembly  mitophagy  cysteine-type endopeptidase activity  cysteine-type endopeptidase activity  cytoplasm  mitochondrial matrix  cytosol  C-terminal protein lipidation  proteolysis  protein targeting to membrane  apoptotic process  nucleophagy  protein delipidation  
Ontology : EGO-EBIautophagosome assembly  mitophagy  cysteine-type endopeptidase activity  cysteine-type endopeptidase activity  cytoplasm  mitochondrial matrix  cytosol  C-terminal protein lipidation  proteolysis  protein targeting to membrane  apoptotic process  nucleophagy  protein delipidation  
Pathways : KEGGRegulation of autophagy   
NDEx NetworkATG4D
Atlas of Cancer Signalling NetworkATG4D
Wikipedia pathwaysATG4D
Orthology - Evolution
OrthoDB84971
GeneTree (enSembl)ENSG00000130734
Phylogenetic Trees/Animal Genes : TreeFamATG4D
HOVERGENQ86TL0
HOGENOMQ86TL0
Homologs : HomoloGeneATG4D
Homology/Alignments : Family Browser (UCSC)ATG4D
Gene fusions - Rearrangements
Fusion : MitelmanATG4D/UHRF1 [19p13.2/19p13.3]  
Fusion: TCGA_MDACCATG4D 19p13.2 UHRF1 19p13.3 OV
Tumor Fusion PortalATG4D
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerATG4D [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)ATG4D
dbVarATG4D
ClinVarATG4D
1000_GenomesATG4D 
Exome Variant ServerATG4D
ExAC (Exome Aggregation Consortium)ENSG00000130734
GNOMAD BrowserENSG00000130734
Genetic variants : HAPMAP84971
Genomic Variants (DGV)ATG4D [DGVbeta]
DECIPHERATG4D [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisATG4D 
Mutations
ICGC Data PortalATG4D 
TCGA Data PortalATG4D 
Broad Tumor PortalATG4D
OASIS PortalATG4D [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICATG4D  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDATG4D
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 ATG4D
DgiDB (Drug Gene Interaction Database)ATG4D
DoCM (Curated mutations)ATG4D (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)ATG4D (select a term)
intoGenATG4D
Cancer3DATG4D(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM611340   
Orphanet
DisGeNETATG4D
MedgenATG4D
Genetic Testing Registry ATG4D
NextProtQ86TL0 [Medical]
TSGene84971
GENETestsATG4D
Target ValidationATG4D
Huge Navigator ATG4D [HugePedia]
snp3D : Map Gene to Disease84971
BioCentury BCIQATG4D
ClinGenATG4D
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD84971
Chemical/Pharm GKB GenePA134907475
Clinical trialATG4D
Miscellaneous
canSAR (ICR)ATG4D (select the gene name)
Probes
Litterature
PubMed12 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineATG4D
EVEXATG4D
GoPubMedATG4D
iHOPATG4D
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 21 14:04:05 CET 2017

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