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Aliases for PAN3 Gene

Aliases for PAN3 Gene

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

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

UniProtKB/Swiss-Prot 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.

Additional gene information for PAN3 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PAN3 Gene

Genomics for PAN3 Gene

GeneHancer (GH) Regulatory Elements for PAN3 Gene

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
GH13I028136 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 567.1 +3.2 3182 6.1 HDGF PKNOX1 SMAD1 ARID4B SIN3A DMAP1 YY1 POLR2B ZNF213 ZNF207 PAN3 PAN3-AS1 RNU6-82P SNORA27 POLR1D EEF1A1P3
GH13I027617 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 25.3 -516.2 -516178 5.3 HDGF PKNOX1 CLOCK FOXA2 ZFP64 ARID4B NEUROD1 SIN3A FEZF1 DMAP1 POLR1D LNX2 PAN3 RNU6-63P
GH13I028530 Enhancer 1.4 FANTOM5 Ensembl ENCODE 36.6 +395.5 395549 3 HDGF PKNOX1 ARNT SIN3A YBX1 FEZF1 ZNF2 ZNF143 ZNF548 REST PAN3 PAN3-AS1 FLT1 POMP POLR1D EEF1A1P3 ENSG00000279393 LOC105370135
GH13I027250 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 12.7 -884.4 -884439 4.1 PKNOX1 FOXA2 ARID4B SIN3A DMAP1 ZNF2 IRF4 YY1 POLR2B ZNF766 GC13M027245 LINC02340 RPL21 USP12 WASF3 PAN3 SNORA27 MTIF3 PIR55933
GH13I028160 Enhancer 1.1 Ensembl ENCODE 18.3 +25.0 24992 1.8 ATF1 INSM2 KLF17 ZNF76 FEZF1 ZEB1 ZNF366 SCRT2 ZNF391 ATF7 PAN3 PAN3-AS1 EEF1A1P3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around PAN3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PAN3 gene promoter:

Genomic Locations for PAN3 Gene

Genomic Locations for PAN3 Gene
chr13:28,136,717-28,295,338
(GRCh38/hg38)
Size:
158,622 bases
Orientation:
Plus strand
chr13:28,712,643-28,869,475
(GRCh37/hg19)

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=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=ABK41888.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=BAC03632.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAI12449.2; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAI12450.2; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAI14848.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAM20921.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for PAN3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PAN3 Gene

Post-translational modifications for PAN3 Gene

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:

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:0003723 RNA binding IEA --
GO:0004535 contributes_to poly(A)-specific ribonuclease activity IDA 14583602
GO:0004672 protein kinase activity IEA --
GO:0005515 protein binding IPI 14583602
GO:0005524 ATP binding IEA --
genes like me logo Genes that share ontologies with PAN3: view
genes like me logo Genes that share phenotypes with PAN3: view

miRNA for PAN3 Gene

miRTarBase miRNAs that target PAN3

Clone Products

  • Addgene plasmids 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 5
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 --
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 IBA,IEA --
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

(13) REFSEQ mRNAs :
(10) Additional mRNA sequences :
(3) Selected AceView cDNA sequences:
(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PAN3 Gene

PAN3 poly(A) specific ribonuclease subunit homolog (S. cerevisiae):
Representative Sequences:

Clone Products

  • Addgene plasmids 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
ECgene alternative splicing isoforms for
PAN3

Expression for PAN3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP 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, PaxDb, MaxQB, and MOPED for PAN3 Gene



Protein tissue co-expression partners for PAN3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PAN3 Gene:

PAN3

SOURCE GeneReport for Unigene cluster for PAN3 Gene:

Hs.645015

Evidence on tissue expression from TISSUES for PAN3 Gene

  • Adrenal gland(4.2)
  • Skin(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 33 34
  • 99.7 (n)
dog
(Canis familiaris)
Mammalia PAN3 33 34
  • 95.3 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PAN3 34
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PAN3 33 34
  • 93.98 (n)
rat
(Rattus norvegicus)
Mammalia Pan3 33
  • 91.46 (n)
mouse
(Mus musculus)
Mammalia Pan3 33 16 34
  • 89.42 (n)
oppossum
(Monodelphis domestica)
Mammalia PAN3 34
  • 89 (a)
OneToOne
chicken
(Gallus gallus)
Aves PAN3 33 34
  • 86.99 (n)
lizard
(Anolis carolinensis)
Reptilia PAN3 34
  • 91 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pan3 33
  • 79.31 (n)
Str.17142 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.4185 33
zebrafish
(Danio rerio)
Actinopterygii pan3 33 34
  • 72.18 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG11486 34
  • 38 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea panl-3 34
  • 36 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PAN3 33 34 36
  • 45.33 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E08097g 33
  • 45.27 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ACR172W 33
  • 43.71 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8760 34
  • 65 (a)
OneToOne
bread mold
(Neurospora crassa)
Ascomycetes NCU01929 33
  • 45.51 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4729 33
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)

Paralogs for PAN3 Gene

No data available for Paralogs for PAN3 Gene

Variants for PAN3 Gene

Sequence variations from dbSNP and Humsavar for PAN3 Gene

SNP ID Clin Chr 13 pos Variation AA Info Type
rs1000002316 -- 28,169,209(+) T/A genic_upstream_transcript_variant, intron_variant
rs1000016158 -- 28,254,074(+) C/T intron_variant
rs1000022367 -- 28,275,295(+) A/T intron_variant
rs1000023522 -- 28,238,085(+) G/A intron_variant
rs1000030646 -- 28,242,045(+) C/T intron_variant

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot 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 58
  2. GW182 proteins directly recruit cytoplasmic deadenylase complexes to miRNA targets. (PMID: 21981923) Braun JE … Izaurralde E (Molecular cell 2011) 3 4 58
  3. 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 58
  4. 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 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58

Products for PAN3 Gene

  • Addgene plasmids for PAN3

Sources for PAN3 Gene

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