Aliases for PAN3 Gene

Aliases for PAN3 Gene

  • Poly(A) Specific Ribonuclease Subunit PAN3 2 3 5
  • Poly(A)-Nuclease Deadenylation Complex Subunit 3 3 4
  • PAB1P-Dependent Poly(A)-Specific Ribonuclease 3 4
  • PAN2-PAN3 Deadenylation Complex Subunit PAN3 3 4
  • PAN Deadenylation Complex Subunit 3 3 4
  • PAN3 Poly(A) Specific Ribonuclease Subunit Homolog (S. Cerevisiae) 2
  • PABP1-Dependent Poly A-Specific Ribonuclease Subunit PAN3 3
  • PAB-Dependent Poly(A)-Specific Ribonuclease Subunit PAN3 3
  • PAB-Dependent Poly(A)-Specific Ribonuclease Subunit 3 3
  • PAN3 Poly(A) Specific Ribonuclease Subunit Homolog 3
  • PAN3 Poly(A) Specific Ribonuclease Subunit 2
  • PABP-Dependent Poly(A) Nuclease 3 3
  • PAB1P-Dependent Poly(A)-Nuclease 3
  • PAN3 5

External Ids for PAN3 Gene

Previous GeneCards Identifiers for PAN3 Gene

  • GC13P026652
  • GC13P026546
  • GC13P027646
  • GC13P028713
  • GC13P009533

Summaries for PAN3 Gene

GeneCards Summary for PAN3 Gene

PAN3 (Poly(A) Specific Ribonuclease Subunit PAN3) is a Protein Coding gene. Among its related pathways are Deadenylation-dependent mRNA decay and Gene Expression. Gene Ontology (GO) annotations related to this gene include transferase activity, transferring phosphorus-containing groups and poly(A)-specific ribonuclease activity.

UniProtKB/Swiss-Prot Summary for PAN3 Gene

  • Regulatory subunit of the poly(A)-nuclease (PAN) deadenylation complex, one of two cytoplasmic mRNA deadenylases involved in general and miRNA-mediated mRNA turnover. PAN specifically shortens poly(A) tails of RNA and the activity is stimulated by poly(A)-binding protein (PABP). PAN deadenylation is followed by rapid degradation of the shortened mRNA tails by the CCR4-NOT complex. Deadenylated mRNAs are then degraded by two alternative mechanisms, namely exosome-mediated 3'-5' exonucleolytic degradation, or deadenlyation-dependent mRNA decaping and subsequent 5'-3' exonucleolytic degradation by XRN1. PAN3 acts as a positive regulator for PAN activity, recruiting the catalytic subunit PAN2 to mRNA via its interaction with RNA and PABP, and to miRNA targets via its interaction with GW182 family proteins.

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for PAN3 Gene

Genomics for PAN3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for PAN3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH13J027617 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 33.7 -514.2 -514178 5.9 SP1 HNRNPL CREB1 CTCF PRDM10 ZNF629 IKZF1 POLR2A BACH1 FOS POLR1D LNX2 NONHSAG013086.2 PAN3
GH13J028530 Promoter/Enhancer 1.5 FANTOM5 ENCODE CraniofacialAtlas 36.6 +397.2 397245 3 RNF2 ARHGAP35 PRDM10 ZNF512 LEF1 IKZF1 KDM1A TARDBP JUND LARP7 PAN3 PAN3-AS1 FLT1 POMP POLR1D EEF1A1P3 piR-57461-061 piR-31937-052
GH13J028136 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 17 +4.7 4749 6.3 SP1 PRDM10 RFX1 IKZF1 KDM1A ZNF692 POLR2A TARDBP LARP7 PRDM1 PAN3-AS1 PAN3 RNU6-82P SNORA27 POLR1D EEF1A1P3 piR-32214-133 FLT1
GH13J028655 Promoter/Enhancer 1.9 EPDnew FANTOM5 Ensembl ENCODE 17.5 +523.0 522997 5.7 SP1 CREB1 GATAD2A HNRNPL ZNF629 TFE3 IKZF1 ZNF692 POLR2A BACH1 NONHSAG013108.2 POMP lnc-SLC46A3-7 PAN3 RF00017-1380 FLT1
GH13J027270 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 12.4 -863.5 -863520 3.8 ZNF221 CTCF PRDM10 ZNF629 ZNF692 FOXA1 LARP7 ZNF143 PHF21A ZIC2 RASL11A PAN3 PAN3-AS1 piR-46501-031 GTF3A
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PAN3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for PAN3

Top Transcription factor binding sites by QIAGEN in the PAN3 gene promoter:
  • AREB6
  • FOXC1
  • FOXO4
  • HNF-3beta
  • Nkx2-5
  • Pbx1a
  • STAT6
  • TBP
  • TFIID

Genomic Locations for PAN3 Gene

Genomic Locations for PAN3 Gene
chr13:28,135,021-28,295,335
(GRCh38/hg38)
Size:
160,315 bases
Orientation:
Plus strand
chr13:28,712,643-28,869,475
(GRCh37/hg19)
Size:
156,833 bases
Orientation:
Plus strand

Genomic View for PAN3 Gene

Genes around PAN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PAN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PAN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PAN3 Gene

Proteins for PAN3 Gene

  • Protein details for PAN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q58A45-PAN3_HUMAN
    Recommended name:
    PAN2-PAN3 deadenylation complex subunit PAN3
    Protein Accession:
    Q58A45
    Secondary Accessions:
    • A0N0X1
    • A1A4Y8
    • A1A4Y9
    • B1ALF1
    • B7Z3W7
    • Q0D2P2
    • Q5HYG6
    • Q5T515
    • Q5T516
    • Q5TBA0
    • Q76E13
    • Q8NBA6

    Protein attributes for PAN3 Gene

    Size:
    887 amino acids
    Molecular mass:
    95613 Da
    Quaternary structure:
    • Homodimer. Forms a heterotrimer with a catalytic subunit PAN2 to form the poly(A)-nuclease (PAN) deadenylation complex. Interacts (via PAM-2 motif) with poly(A)-binding protein PABPC1 (via PABC domain), conferring substrate specificity of the enzyme complex. Interacts with the GW182 family proteins TNRC6A, TNRC6B and TNRC6C.
    SequenceCaution:
    • Sequence=AAI28180.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305}; Sequence=ABK41888.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=BAC03632.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};

    Alternative splice isoforms for PAN3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PAN3 Gene

Post-translational modifications for PAN3 Gene

  • Ubiquitination at Lys594
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for PAN3 Gene

Domains & Families for PAN3 Gene

Gene Families for PAN3 Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for PAN3 Gene

Suggested Antigen Peptide Sequences for PAN3 Gene

GenScript: Design optimal peptide antigens:
  • PAB-dependent poly(A)-specific ribonuclease subunit 3 (PAN3_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q58A45

UniProtKB/Swiss-Prot:

PAN3_HUMAN :
  • The N-terminal zinc finger binds to poly(A) RNA.
  • Belongs to the protein kinase superfamily. PAN3 family.
Domain:
  • The N-terminal zinc finger binds to poly(A) RNA.
  • Contains a pseudokinase domain. The protein kinase domain is predicted to be catalytically inactive because some of the residues important for catalytic activity are substituted and it lacks the equivalent of the binding site for a peptide substrate. However, it has retained an ATP-binding site and ATP-binding is required for mRNA degradation, stimulating the activity of the PAN2 nuclease in vitro. The nucleotide-binding site is juxtaposed to the RNase active site of PAN2 in the complex and may actually bind nucleosides of a poly(A) RNA rather than ATP, feeding the poly(A)-tail to the active site of the deadenylase and thus increasing the efficiency with which this distributive enzyme degrades oligo(A) RNAs.
  • The pseudokinase domain, the coiled-coil (CC), and C-terminal knob domain (CK) form a structural unit (PKC) that forms an extensive high-affinity interaction surface for PAN2.
Family:
  • Belongs to the protein kinase superfamily. PAN3 family.
genes like me logo Genes that share domains with PAN3: view

Function for PAN3 Gene

Molecular function for PAN3 Gene

UniProtKB/Swiss-Prot Function:
Regulatory subunit of the poly(A)-nuclease (PAN) deadenylation complex, one of two cytoplasmic mRNA deadenylases involved in general and miRNA-mediated mRNA turnover. PAN specifically shortens poly(A) tails of RNA and the activity is stimulated by poly(A)-binding protein (PABP). PAN deadenylation is followed by rapid degradation of the shortened mRNA tails by the CCR4-NOT complex. Deadenylated mRNAs are then degraded by two alternative mechanisms, namely exosome-mediated 3'-5' exonucleolytic degradation, or deadenlyation-dependent mRNA decaping and subsequent 5'-3' exonucleolytic degradation by XRN1. PAN3 acts as a positive regulator for PAN activity, recruiting the catalytic subunit PAN2 to mRNA via its interaction with RNA and PABP, and to miRNA targets via its interaction with GW182 family proteins.

Phenotypes From GWAS Catalog for PAN3 Gene

Gene Ontology (GO) - Molecular Function for PAN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003723 RNA binding IEA --
GO:0004535 contributes_to poly(A)-specific ribonuclease activity IBA,IDA 14583602
GO:0004672 protein kinase activity IEA --
GO:0005515 protein binding IPI 14583602
genes like me logo Genes that share ontologies with PAN3: view
genes like me logo Genes that share phenotypes with PAN3: view

Animal Model Products

  • Taconic Biosciences Mouse Models for PAN3

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PAN3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PAN3 Gene

Localization for PAN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PAN3 Gene

Cytoplasm, P-body.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PAN3 gene
Compartment Confidence
cytosol 4
cytoskeleton 2
nucleus 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for PAN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 P-body IEA,IBA 21873635
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
GO:0031251 PAN complex IEA,IDA 14583602
genes like me logo Genes that share ontologies with PAN3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for PAN3 Gene

Pathways & Interactions for PAN3 Gene

genes like me logo Genes that share pathways with PAN3: view

Pathways by source for PAN3 Gene

1 KEGG pathway for PAN3 Gene

Gene Ontology (GO) - Biological Process for PAN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay IEA --
GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening IEA,TAS --
GO:0000290 deadenylation-dependent decapping of nuclear-transcribed mRNA IEA,IBA 21873635
GO:0006397 mRNA processing IEA --
GO:0006468 protein phosphorylation IEA --
genes like me logo Genes that share ontologies with PAN3: view

No data available for SIGNOR curated interactions for PAN3 Gene

Drugs & Compounds for PAN3 Gene

No Compound Related Data Available

Transcripts for PAN3 Gene

mRNA/cDNA for PAN3 Gene

1 REFSEQ mRNAs :
11 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PAN3

Alternative Splicing Database (ASD) splice patterns (SP) for PAN3 Gene

No ASD Table

Relevant External Links for PAN3 Gene

GeneLoc Exon Structure for
PAN3

Expression for PAN3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PAN3 Gene

Protein differential expression in normal tissues from HIPED for PAN3 Gene

This gene is overexpressed in Placenta (15.4), Blymphocyte (14.9), Peripheral blood mononuclear cells (12.7), CD8 Tcells (10.9), and Platelet (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for PAN3 Gene



Protein tissue co-expression partners for PAN3 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for PAN3

SOURCE GeneReport for Unigene cluster for PAN3 Gene:

Hs.645015

Evidence on tissue expression from TISSUES for PAN3 Gene

  • Skin(4.2)
  • Adrenal gland(4.2)
genes like me logo Genes that share expression patterns with PAN3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PAN3 Gene

Orthologs for PAN3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for PAN3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia PAN3 30 31
  • 99.7 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia PAN3 30 31
  • 95.3 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia PAN3 31
  • 94 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia PAN3 30 31
  • 93.98 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Pan3 30
  • 91.46 (n)
Mouse
(Mus musculus)
Mammalia Pan3 30 17 31
  • 89.42 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia PAN3 31
  • 89 (a)
OneToOne
Chicken
(Gallus gallus)
Aves PAN3 30 31
  • 86.99 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia PAN3 31
  • 91 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia pan3 30
  • 79.31 (n)
Str.17142 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.4185 30
Zebrafish
(Danio rerio)
Actinopterygii pan3 30 31
  • 72.18 (n)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta CG11486 31
  • 38 (a)
OneToOne
Worm
(Caenorhabditis elegans)
Secernentea panl-3 31
  • 36 (a)
OneToOne
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PAN3 30 31 33
  • 45.33 (n)
OneToOne
K. Lactis Yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E08097g 30
  • 45.27 (n)
A. gosspyii yeast
(Eremothecium gossypii)
Saccharomycetes AGOS_ACR172W 30
  • 43.71 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.8760 31
  • 65 (a)
OneToOne
Bread mold
(Neurospora crassa)
Ascomycetes NCU01929 30
  • 45.51 (n)
Sea Vase
(Ciona intestinalis)
Ascidiacea Cin.4729 30
Species where no ortholog for PAN3 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for PAN3 Gene

ENSEMBL:
Gene Tree for PAN3 (if available)
TreeFam:
Gene Tree for PAN3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PAN3: view image

Paralogs for PAN3 Gene

No data available for Paralogs for PAN3 Gene

Variants for PAN3 Gene

Additional dbSNP identifiers (rs#s) for PAN3 Gene

Structural Variations from Database of Genomic Variants (DGV) for PAN3 Gene

Variant ID Type Subtype PubMed ID
dgv935n106 CNV deletion 24896259
esv1004538 CNV deletion 20482838
esv1220684 CNV deletion 17803354
esv1931997 CNV deletion 18987734
esv2644170 CNV deletion 19546169
esv2747192 CNV deletion 23290073
esv2747193 CNV deletion 23290073
esv34052 CNV loss 18971310
esv3550236 CNV deletion 23714750
esv4105 CNV loss 18987735
esv8541 CNV loss 19470904
nsv1046460 CNV loss 25217958
nsv1070580 CNV deletion 25765185
nsv1148651 CNV deletion 26484159
nsv478014 CNV novel sequence insertion 20440878
nsv478557 CNV novel sequence insertion 20440878
nsv525459 CNV loss 19592680
nsv64676 CNV deletion 16902084
nsv958107 CNV deletion 24416366
nsv974072 CNV duplication 23825009

Variation tolerance for PAN3 Gene

Residual Variation Intolerance Score: 5.37% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.17; 39.31% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PAN3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PAN3

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for PAN3 Gene

Disorders for PAN3 Gene

Additional Disease Information for PAN3

No disorders were found for PAN3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PAN3 Gene

Publications for PAN3 Gene

  1. Identification of a human cytoplasmic poly(A) nuclease complex stimulated by poly(A)-binding protein. (PMID: 14583602) Uchida N … Katada T (The Journal of biological chemistry 2004) 2 3 4
  2. GW182 proteins directly recruit cytoplasmic deadenylase complexes to miRNA targets. (PMID: 21981923) Braun JE … Izaurralde E (Molecular cell 2011) 3 4
  3. Poly(A) nuclease interacts with the C-terminal domain of polyadenylate-binding protein domain from poly(A)-binding protein. (PMID: 17595167) Siddiqui N … Gehring K (The Journal of biological chemistry 2007) 3 4
  4. Mechanism of mRNA deadenylation: evidence for a molecular interplay between translation termination factor eRF3 and mRNA deadenylases. (PMID: 18056425) Funakoshi Y … Hoshino S (Genes & development 2007) 3 4
  5. The DNA sequence and analysis of human chromosome 13. (PMID: 15057823) Dunham A … Ross MT (Nature 2004) 3 4

Products for PAN3 Gene

Sources for PAN3 Gene