Aliases for TENT4B Gene

Aliases for TENT4B Gene

  • Terminal Nucleotidyltransferase 4B 2 3 4 5
  • TRF4-2 2 3 4
  • TUT3 2 3 4
  • PAP-Associated Domain-Containing Protein 5 3 4
  • Non-Canonical Poly(A) RNA Polymerase PAPD5 3 4
  • Topoisomerase-Related Function Protein 4-2 3 4
  • Poly(A) RNA Polymerase D5, Non-Canonical 2 3
  • PAP Associated Domain Containing 5 2 3
  • Terminal Uridylyltransferase 3 3 4
  • Terminal Guanylyltransferase 3 4
  • TUTase 3 3 4
  • PAPD5 3 4
  • Terminal Nucleotidyltransferase 4A 3
  • EC 2.7.7.19 4
  • EC 2.7.7.- 4
  • EC 2.7.7 51
  • TUTase3 2
  • TENT4B 5
  • GLD4 4

External Ids for TENT4B Gene

Previous HGNC Symbols for TENT4B Gene

  • PAPD5

Previous GeneCards Identifiers for TENT4B Gene

  • GC16P050350
  • GC16P050369
  • GC16P050353
  • GC16P050362
  • GC16P050294
  • GC16P050330

Summaries for TENT4B Gene

GeneCards Summary for TENT4B Gene

TENT4B (Terminal Nucleotidyltransferase 4B) is a Protein Coding gene. Diseases associated with TENT4B include Dyskeratosis Congenita. Among its related pathways are Deadenylation-dependent mRNA decay. An important paralog of this gene is TENT4A.

UniProtKB/Swiss-Prot Summary for TENT4B Gene

  • Terminal nucleotidyltransferase that catalyzes preferentially the transfert of ATP and GTP on RNA 3' poly(A) tail creating a heterogeneous 3' poly(A) tail leading to mRNAs stabilization by protecting mRNAs from active deadenylation (PubMed:21788334, PubMed:30026317). Also functions as a catalytic subunit of a TRAMP-like complex which has a poly(A) RNA polymerase activity and is involved in a post-transcriptional quality control mechanism. Polyadenylation with short oligo(A) tails is required for the degradative activity of the exosome on several of its nuclear RNA substrates. Doesn't need a cofactor for polyadenylation activity (in vitro) (PubMed:21788334, PubMed:21855801). Required for cytoplasmic polyadenylation of mRNAs involved in carbohydrate metabolism, including the glucose transporter SLC2A1/GLUT1 (PubMed:28383716). Plays a role in replication-dependent histone mRNA degradation, probably through terminal uridylation of mature histone mRNAs. May play a role in sister chromatid cohesion (PubMed:18172165). Mediates 3' adenylation of the microRNA MIR21 followed by its 3'-to-5' trimming by the exoribonuclease PARN leading to degradation (PubMed:25049417). Mediates 3' adenylation of H/ACA box snoRNAs (small nucleolar RNAs) followed by its 3'-to-5' trimming by the exoribonuclease PARN which enhances snoRNA stability and maturation (PubMed:22442037).

Additional gene information for TENT4B Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TENT4B Gene

Genomics for TENT4B Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for TENT4B 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
GH16J050151 Promoter/Enhancer 1.7 Ensembl ENCODE CraniofacialAtlas 611.1 +1.2 1169 4.6 SP1 HNRNPL GATAD2A ATF7 PRDM10 ZNF629 REST RFX1 SOX13 NFKBIZ TENT4B HEATR3 SNX20 CNEP1R1 BRD7 piR-32603 ADCY7
GH16J050263 Promoter/Enhancer 1.9 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 19.3 +113.8 113779 5.8 GATAD2A IKZF1 NFKBIZ CTCF POLR2A ZNF7 BACH1 JUND ZNF143 MTA2 lnc-PAPD5-2 TENT4B CNEP1R1 BRD7 NKD1 CYLD ADCY7 MIR6771
GH16J051144 Promoter/Enhancer 2.8 UCNEbase EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 11.1 +997.2 997189 13.4 HNRNPL CTCF PRDM10 REST PRDM1 ZIC2 ZSCAN4 RBFOX2 POLR2A PATZ1 SALL1 ENSG00000261238 ENSG00000285367 lnc-SALL1-7 TENT4B LOC105371253 lnc-SALL1-9
GH16J050367 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 14.3 +215.8 215769 3 RNF2 ARHGAP35 PRDM10 ZNF512 LEF1 IKZF1 NFKBIZ CTCF ZNF692 ZNF300 BRD7 ENSG00000261393 TENT4B SNX20 ZNF423 ADCY7
GH16J050457 Enhancer 1.4 UCNEbase Ensembl ENCODE dbSUPER 20.7 +305.9 305870 3.2 GATAD2A RCOR2 ZNF740 ELK1 CEBPA ZNF766 E2F5 NR2C2 ZBTB11 GABPA TENT4B NOD2 ENSG00000260573 BRD7 NKD1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TENT4B on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TENT4B

Genomic Locations for TENT4B Gene

Genomic Locations for TENT4B Gene
chr16:50,152,911-50,235,310
(GRCh38/hg38)
Size:
82,400 bases
Orientation:
Plus strand
chr16:50,186,829-50,269,221
(GRCh37/hg19)
Size:
82,393 bases
Orientation:
Plus strand

Genomic View for TENT4B Gene

Genes around TENT4B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TENT4B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TENT4B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TENT4B Gene

Proteins for TENT4B Gene

  • Protein details for TENT4B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NDF8-PAPD5_HUMAN
    Recommended name:
    Terminal nucleotidyltransferase 4B
    Protein Accession:
    Q8NDF8
    Secondary Accessions:
    • B4DV38
    • Q9NW67
    • Q9Y6C0

    Protein attributes for TENT4B Gene

    Size:
    572 amino acids
    Molecular mass:
    63267 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Cofactor:
    Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
    Quaternary structure:
    • Component of a nucleolar TRAMP-like complex, an ATP-dependent exosome regulatory complex consisting of a helicase (MTREX), an oligadenylate polymerase (TENT4B or TENT4A), and a substrate specific RNA-binding factor (ZCCHC7 or ZCCHC8). Several TRAMP-like complexes exist with specific compositions and are associated with nuclear, or nucleolar RNA exosomes (PubMed:21855801). Interacts with CPEB1; the interaction is required for TENT4B-mediated translational control (PubMed:28383716).
    SequenceCaution:
    • Sequence=AAD45199.1; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305}; Sequence=BAA91518.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};

    Alternative splice isoforms for TENT4B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TENT4B Gene

Selected DME Specific Peptides for TENT4B Gene

Q8NDF8:
  • SFLQLHPR
  • LYLPTSD

Post-translational modifications for TENT4B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Domains & Families for TENT4B Gene

Gene Families for TENT4B Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Enzymes
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for TENT4B Gene

InterPro:
Blocks:
  • DNA polymerase, beta-like region
  • PAP/25A-associated domain
ProtoNet:

Suggested Antigen Peptide Sequences for TENT4B Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ55626, highly similar to PAP-associated domain-containing protein 5 (EC2.7.7.-) (B4DV38_HUMAN)
  • PAPD5 protein (B7ZLC1_HUMAN)
  • Topoisomerase-related function protein 4-2 (PAPD5_HUMAN)
  • PAPD5 protein (Q5EBM7_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q8NDF8

UniProtKB/Swiss-Prot:

PAPD5_HUMAN :
  • Belongs to the DNA polymerase type-B-like family.
Family:
  • Belongs to the DNA polymerase type-B-like family.
genes like me logo Genes that share domains with TENT4B: view

Function for TENT4B Gene

Molecular function for TENT4B Gene

UniProtKB/Swiss-Prot Function:
Terminal nucleotidyltransferase that catalyzes preferentially the transfert of ATP and GTP on RNA 3' poly(A) tail creating a heterogeneous 3' poly(A) tail leading to mRNAs stabilization by protecting mRNAs from active deadenylation (PubMed:21788334, PubMed:30026317). Also functions as a catalytic subunit of a TRAMP-like complex which has a poly(A) RNA polymerase activity and is involved in a post-transcriptional quality control mechanism. Polyadenylation with short oligo(A) tails is required for the degradative activity of the exosome on several of its nuclear RNA substrates. Doesn't need a cofactor for polyadenylation activity (in vitro) (PubMed:21788334, PubMed:21855801). Required for cytoplasmic polyadenylation of mRNAs involved in carbohydrate metabolism, including the glucose transporter SLC2A1/GLUT1 (PubMed:28383716). Plays a role in replication-dependent histone mRNA degradation, probably through terminal uridylation of mature histone mRNAs. May play a role in sister chromatid cohesion (PubMed:18172165). Mediates 3' adenylation of the microRNA MIR21 followed by its 3'-to-5' trimming by the exoribonuclease PARN leading to degradation (PubMed:25049417). Mediates 3' adenylation of H/ACA box snoRNAs (small nucleolar RNAs) followed by its 3'-to-5' trimming by the exoribonuclease PARN which enhances snoRNA stability and maturation (PubMed:22442037).
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=ATP + RNA(n) = diphosphate + RNA(n)-3'-adenine ribonucleotide; Xref=Rhea:RHEA:11332, Rhea:RHEA-COMP:11128, Rhea:RHEA-COMP:14647, ChEBI:CHEBI:30616, ChEBI:CHEBI:33019, ChEBI:CHEBI:83400, ChEBI:CHEBI:140626; EC=2.7.7.19; Evidence={ECO:0000269|PubMed:21788334};.

Enzyme Numbers (IUBMB) for TENT4B Gene

Phenotypes From GWAS Catalog for TENT4B Gene

Gene Ontology (GO) - Molecular Function for TENT4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding IEA,HDA 22658674
GO:0003887 DNA-directed DNA polymerase activity IEA --
GO:0004652 polynucleotide adenylyltransferase activity IEA,IDA 28383716
GO:0005515 protein binding IPI 28383716
genes like me logo Genes that share ontologies with TENT4B: view
genes like me logo Genes that share phenotypes with TENT4B: view

Animal Model Products

CRISPR Products

miRNA for TENT4B Gene

miRTarBase miRNAs that target TENT4B

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TENT4B

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TENT4B Gene

Localization for TENT4B Gene

Subcellular locations from UniProtKB/Swiss-Prot for TENT4B Gene

Nucleus. Nucleus, nucleolus. Cytoplasm. Note=Predominantly expressed in the cytoplasm (PubMed:18172165).

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 TENT4B gene
Compartment Confidence
nucleus 5
cytosol 3
extracellular 2
plasma membrane 1
cytoskeleton 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for TENT4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005730 nucleolus IBA,IDA 21855801
GO:0005737 cytoplasm IEA,IDA 28383716
GO:0031499 TRAMP complex IBA,IDA 21855801
genes like me logo Genes that share ontologies with TENT4B: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for TENT4B Gene

Pathways & Interactions for TENT4B Gene

PathCards logo

SuperPathways for TENT4B Gene

SuperPathway Contained pathways
1 Deadenylation-dependent mRNA decay
genes like me logo Genes that share pathways with TENT4B: view

Pathways by source for TENT4B Gene

1 KEGG pathway for TENT4B Gene

Gene Ontology (GO) - Biological Process for TENT4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006364 rRNA processing IEA --
GO:0006378 mRNA polyadenylation IDA 28383716
GO:0006397 mRNA processing IEA --
GO:0007049 cell cycle IEA --
GO:0010587 miRNA catabolic process IDA 25049417
genes like me logo Genes that share ontologies with TENT4B: view

No data available for SIGNOR curated interactions for TENT4B Gene

Drugs & Compounds for TENT4B Gene

(1) Additional Compounds for TENT4B Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
pyrophosphate
  • [(ho)2P(O)OP(O)(OH)2]
  • Acide diphosphorique
  • Diphosphorsaeure
  • H4P2O7
  • PYROphosphATE
14000-31-8
genes like me logo Genes that share compounds with TENT4B: view

Transcripts for TENT4B Gene

mRNA/cDNA for TENT4B Gene

5 REFSEQ mRNAs :
13 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 TENT4B

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TENT4B Gene

No ASD Table

Relevant External Links for TENT4B Gene

GeneLoc Exon Structure for
TENT4B

Expression for TENT4B Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TENT4B

Evidence on tissue expression from TISSUES for TENT4B Gene

  • Intestine(4.3)
  • Liver(2.3)
No Expression Related Data Available

Primer Products

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TENT4B Gene

Orthologs for TENT4B Gene

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

Orthologs for TENT4B Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia PAPD5 30 31
  • 99.64 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia PAPD5 30 31
  • 94.82 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia PAPD5 30 31
  • 93.78 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Papd5 30 31
  • 91.65 (n)
OneToOne
Tent4b 17
Rat
(Rattus norvegicus)
Mammalia Papd5 30
  • 91.21 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia PAPD5 31
  • 91 (a)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia PAPD5 31
  • 88 (a)
OneToOne
Chicken
(Gallus gallus)
Aves PAPD5 30 31
  • 83.44 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia PAPD5 31
  • 69 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia papd5 30
  • 70.59 (n)
Str.15034 30
Zebrafish
(Danio rerio)
Actinopterygii LOC568678 30
  • 64.5 (n)
PAPD5 31
  • 57 (a)
OneToOne
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.1862 30
Fruit Fly
(Drosophila melanogaster)
Insecta Trf4-2 31
  • 37 (a)
ManyToMany
Trf4-1 31
  • 25 (a)
ManyToMany
Worm
(Caenorhabditis elegans)
Secernentea gld-4 31
  • 19 (a)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PAP2 31 33
  • 23 (a)
ManyToMany
TRF5 31
  • 20 (a)
ManyToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.9243 31
  • 32 (a)
OneToMany
Species where no ortholog for TENT4B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • Bread mold (Neurospora crassa)
  • 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)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • 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 TENT4B Gene

ENSEMBL:
Gene Tree for TENT4B (if available)
TreeFam:
Gene Tree for TENT4B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TENT4B: view image

Paralogs for TENT4B Gene

Paralogs for TENT4B Gene

genes like me logo Genes that share paralogs with TENT4B: view

Variants for TENT4B Gene

Additional dbSNP identifiers (rs#s) for TENT4B Gene

Structural Variations from Database of Genomic Variants (DGV) for TENT4B Gene

Variant ID Type Subtype PubMed ID
esv2657635 CNV deletion 23128226
esv2676703 CNV deletion 23128226
esv3638602 CNV loss 21293372
esv3638603 CNV loss 21293372
esv3892857 CNV gain 25118596
nsv1069943 CNV deletion 25765185
nsv1112691 CNV deletion 24896259
nsv1160419 CNV duplication 26073780
nsv827645 CNV gain 20364138

Variation tolerance for TENT4B Gene

Residual Variation Intolerance Score: 33.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.81; 47.61% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TENT4B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TENT4B

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 TENT4B Gene

Disorders for TENT4B Gene

MalaCards: The human disease database

(1) MalaCards diseases for TENT4B Gene - From: DISEASES

Disorder Aliases PubMed IDs
dyskeratosis congenita
  • zinsser-cole-engman syndrome
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with TENT4B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TENT4B Gene

Publications for TENT4B Gene

  1. PAPD5, a noncanonical poly(A) polymerase with an unusual RNA-binding motif. (PMID: 21788334) Rammelt C … Keller W (RNA (New York, N.Y.) 2011) 2 3 4
  2. The topoisomerase-related function gene TRF4 affects cellular sensitivity to the antitumor agent camptothecin. (PMID: 10066793) Walowsky C … Christman MF (The Journal of biological chemistry 1999) 2 3 4
  3. Mixed tailing by TENT4A and TENT4B shields mRNA from rapid deadenylation. (PMID: 30026317) Lim J … Kim VN (Science (New York, N.Y.) 2018) 3 4
  4. Essential role for non-canonical poly(A) polymerase GLD4 in cytoplasmic polyadenylation and carbohydrate metabolism. (PMID: 28383716) Shin J … Richter JD (Nucleic acids research 2017) 3 4
  5. PAPD5-mediated 3' adenylation and subsequent degradation of miR-21 is disrupted in proliferative disease. (PMID: 25049417) Boele J … de Hoon MJ (Proceedings of the National Academy of Sciences of the United States of America 2014) 3 4

Products for TENT4B Gene

Sources for TENT4B Gene