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

PATL1 (PAT1 homolog 1, processing body mRNA decay factor)

Identity

Alias_namesprotein associated with topoisomerase II homolog 1 (yeast)
Alias_symbol (synonym)FLJ36874
Pat1b
Other aliashPat1b
HGNC (Hugo) PATL1
LocusID (NCBI) 219988
Atlas_Id 71678
Location 11q12.1  [Link to chromosome band 11q12]
Location_base_pair Starts at 59636716 and ends at 59669038 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)
PATL1 (11q12.1) / TECTA (11q23.3)SHANK2 (11q13.3) / PATL1 (11q12.1)TRIM14 (9q22.33) / PATL1 (11q12.1)

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)PATL1   26721
Cards
Entrez_Gene (NCBI)PATL1  219988  PAT1 homolog 1, processing body mRNA decay factor
AliasesPat1b; hPat1b
GeneCards (Weizmann)PATL1
Ensembl hg19 (Hinxton)ENSG00000166889 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000166889 [Gene_View]  ENSG00000166889 [Sequence]  chr11:59636716-59669038 [Contig_View]  PATL1 [Vega]
ICGC DataPortalENSG00000166889
TCGA cBioPortalPATL1
AceView (NCBI)PATL1
Genatlas (Paris)PATL1
WikiGenes219988
SOURCE (Princeton)PATL1
Genetics Home Reference (NIH)PATL1
Genomic and cartography
GoldenPath hg38 (UCSC)PATL1  -     chr11:59636716-59669038 -  11q12.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PATL1  -     11q12.1   [Description]    (hg19-Feb_2009)
PATL1 - 11q12.1 [CytoView hg19]  PATL1 - 11q12.1 [CytoView hg38]
Mapping of homologs : NCBIPATL1 [Mapview hg19]  PATL1 [Mapview hg38]
OMIM614660   
Gene and transcription
Genbank (Entrez)AB065087 AK094193 AK127649 AK127943 AK293213
RefSeq transcript (Entrez)NM_152716
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PATL1
Cluster EST : UnigeneHs.591960 [ NCBI ]
CGAP (NCI)Hs.591960
Alternative Splicing GalleryENSG00000166889
Gene ExpressionPATL1 [ NCBI-GEO ]   PATL1 [ EBI - ARRAY_EXPRESS ]   PATL1 [ SEEK ]   PATL1 [ MEM ]
Gene Expression Viewer (FireBrowse)PATL1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)219988
GTEX Portal (Tissue expression)PATL1
Human Protein AtlasENSG00000166889-PATL1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ86TB9   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ86TB9  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ86TB9
Splice isoforms : SwissVarQ86TB9
PhosPhoSitePlusQ86TB9
Domains : Interpro (EBI)Topo_II-assoc_PAT1   
Domain families : Pfam (Sanger)PAT1 (PF09770)   
Domain families : Pfam (NCBI)pfam09770   
Conserved Domain (NCBI)PATL1
DMDM Disease mutations219988
Blocks (Seattle)PATL1
PDB (RSDB)2XEQ    2XER    2XES   
PDB Europe2XEQ    2XER    2XES   
PDB (PDBSum)2XEQ    2XER    2XES   
PDB (IMB)2XEQ    2XER    2XES   
Structural Biology KnowledgeBase2XEQ    2XER    2XES   
SCOP (Structural Classification of Proteins)2XEQ    2XER    2XES   
CATH (Classification of proteins structures)2XEQ    2XER    2XES   
SuperfamilyQ86TB9
Human Protein Atlas [tissue]ENSG00000166889-PATL1 [tissue]
Peptide AtlasQ86TB9
HPRD08214
IPIIPI00885108   IPI00760958   IPI00884956   IPI00902595   
Protein Interaction databases
DIP (DOE-UCLA)Q86TB9
IntAct (EBI)Q86TB9
FunCoupENSG00000166889
BioGRIDPATL1
STRING (EMBL)PATL1
ZODIACPATL1
Ontologies - Pathways
QuickGOQ86TB9
Ontology : AmiGOdeadenylation-dependent decapping of nuclear-transcribed mRNA  P-body  RNA binding  protein binding  cytosol  poly(U) RNA binding  PML body  nuclear speck  CCR4-NOT complex  cytoplasmic mRNA processing body assembly  poly(G) binding  exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay  
Ontology : EGO-EBIdeadenylation-dependent decapping of nuclear-transcribed mRNA  P-body  RNA binding  protein binding  cytosol  poly(U) RNA binding  PML body  nuclear speck  CCR4-NOT complex  cytoplasmic mRNA processing body assembly  poly(G) binding  exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay  
NDEx NetworkPATL1
Atlas of Cancer Signalling NetworkPATL1
Wikipedia pathwaysPATL1
Orthology - Evolution
OrthoDB219988
GeneTree (enSembl)ENSG00000166889
Phylogenetic Trees/Animal Genes : TreeFamPATL1
HOGENOMQ86TB9
Homologs : HomoloGenePATL1
Homology/Alignments : Family Browser (UCSC)PATL1
Gene fusions - Rearrangements
Fusion : QuiverPATL1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPATL1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PATL1
dbVarPATL1
ClinVarPATL1
1000_GenomesPATL1 
Exome Variant ServerPATL1
ExAC (Exome Aggregation Consortium)ENSG00000166889
GNOMAD BrowserENSG00000166889
Varsome BrowserPATL1
Genetic variants : HAPMAP219988
Genomic Variants (DGV)PATL1 [DGVbeta]
DECIPHERPATL1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPATL1 
Mutations
ICGC Data PortalPATL1 
TCGA Data PortalPATL1 
Broad Tumor PortalPATL1
OASIS PortalPATL1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPATL1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPATL1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch PATL1
DgiDB (Drug Gene Interaction Database)PATL1
DoCM (Curated mutations)PATL1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PATL1 (select a term)
intoGenPATL1
Cancer3DPATL1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM614660   
Orphanet
DisGeNETPATL1
MedgenPATL1
Genetic Testing Registry PATL1
NextProtQ86TB9 [Medical]
TSGene219988
GENETestsPATL1
Target ValidationPATL1
Huge Navigator PATL1 [HugePedia]
snp3D : Map Gene to Disease219988
BioCentury BCIQPATL1
ClinGenPATL1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD219988
Chemical/Pharm GKB GenePA162398769
Clinical trialPATL1
Miscellaneous
canSAR (ICR)PATL1 (select the gene name)
DataMed IndexPATL1
Probes
Litterature
PubMed33 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePATL1
EVEXPATL1
GoPubMedPATL1
iHOPPATL1
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 : Thu Mar 21 15:17:04 CET 2019
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.