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    TENT4B terminal nucleotidyltransferase 4B [ Homo sapiens (human) ]

    Gene ID: 64282, updated on 27-Dec-2024

    Summary

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    Official Symbol
    TENT4Bprovided by HGNC
    Official Full Name
    terminal nucleotidyltransferase 4Bprovided by HGNC
    Primary source
    HGNC:HGNC:30758
    See related
    Ensembl:ENSG00000121274 MIM:605540; AllianceGenome:HGNC:30758
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TUT3; PAPD5; TRF4-2
    Summary
    Enables guanylyltransferase activity; poly(A) RNA polymerase activity; and telomerase RNA binding activity. Involved in RNA metabolic process; carbohydrate homeostasis; and regulation of nucleobase-containing compound metabolic process. Located in cytosol; nucleolus; and plasma membrane. Part of TRAMP complex. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis (RPKM 5.4), bone marrow (RPKM 4.7) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See TENT4B in Genome Data Viewer
    Location:
    16q12.1
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (50152911..50235310)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (55950748..56033128)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (50186822..50269221)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124900375 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:50186273-50187230 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7475 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7476 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7477 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10808 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10809 Neighboring gene ribosomal protein L10 pseudogene 14 Neighboring gene MPRA-validated peak2589 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:50217888-50218450 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:50218451-50219012 Neighboring gene Sharpr-MPRA regulatory region 14159 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10810 Neighboring gene Sharpr-MPRA regulatory region 8986 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:50278238-50278950 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:50278951-50279662 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7478 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:50280376-50281087 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:50288095-50288594 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10811 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10812 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:50299606-50300199 Neighboring gene adenylate cyclase 7 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:50305212-50306046 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:50306047-50306881 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10814 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:50317845-50318346 Neighboring gene microRNA 6771 Neighboring gene Sharpr-MPRA regulatory region 2137 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr16:50347343-50348542 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:50353005-50354204 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10815 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10816 Neighboring gene bromodomain containing 7 Neighboring gene small nucleolar RNA U13

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. A Genome-wide CRISPR Screen Identifies ZCCHC14 as a Host Factor Required for Hepatitis B Surface Antigen Production. Hyrina A, et al. Cell Rep, 2019 Dec 3. PMID 31801065
    2. Chemical inhibition of PAPD5/7 rescues telomerase function and hematopoiesis in dyskeratosis congenita. Shukla S, et al. Blood Adv, 2020 Jun 23. PMID 32559291, Free PMC Article
    3. PAPD5, a noncanonical poly(A) polymerase with an unusual RNA-binding motif. Rammelt C, et al. RNA, 2011 Sep. PMID 21788334, Free PMC Article
    4. Disruption of Telomerase RNA Maturation Kinetics Precipitates Disease. Roake CM, et al. Mol Cell, 2019 May 16. PMID 30930056, Free PMC Article
    5. Interaction properties of human TRAMP-like proteins and their role in pre-rRNA 5'ETS turnover. Sudo H, et al. FEBS Lett, 2016 Sep. PMID 27434818

    See all (53) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The ZCCHC14/TENT4 complex is required for hepatitis A virus RNA synthesis.
      Title: The ZCCHC14/TENT4 complex is required for hepatitis A virus RNA synthesis.
    2. Chemical inhibition of PAPD5/7 rescues telomerase function and hematopoiesis in dyskeratosis congenita.
      Title: Chemical inhibition of PAPD5/7 rescues telomerase function and hematopoiesis in dyskeratosis congenita.
    3. Viral hijacking of the TENT4-ZCCHC14 complex protects viral RNAs via mixed tailing.
      Title: Viral hijacking of the TENT4-ZCCHC14 complex protects viral RNAs via mixed tailing.
    4. We find that mature hTR derives from extended precursors but that in PARN-mutant cells hTR maturation kinetically stalls and unprocessed precursors are degraded. Loss of poly(A)polymerase PAPD5 in PARN-mutant cells accelerates hTR maturation and restores hTR processing, indicating that oligoadenylation and deadenylation set rates of hTR maturation
      Title: Disruption of Telomerase RNA Maturation Kinetics Precipitates Disease.
    5. TENT4A and TENT4B produce a mixed tail that shields mRNA from rapid deadenylation.
      Title: Mixed tailing by TENT4A and TENT4B shields mRNA from rapid deadenylation.
    6. A novel post-transcriptional regulatory network involving carbohydrate metabolism and glucose homeostasis mediated by GLD4.
      Title: Essential role for non-canonical poly(A) polymerase GLD4 in cytoplasmic polyadenylation and carbohydrate metabolism.
    7. We analyzed the interactions of the human TRAMP-like proteins, PAPD5, ZCCHC7, and MTR4, with the nuclear exosome. PAPD5 and ZCCHC7 exhibited mutual interactions in presence of the exosome catalytic subunit RRP6, whereas MTR4 was dispensable for their assembly
      Title: Interaction properties of human TRAMP-like proteins and their role in pre-rRNA 5'ETS turnover.
    8. PAPD5 and PARN mediate degradation of oncogenic miRNA miR-21.
      Title: PAPD5-mediated 3' adenylation and subsequent degradation of miR-21 is disrupted in proliferative disease.
    9. PAPD5 catalyzes the polyadenylation of different types of RNA substrates in vitro.
      Title: PAPD5, a noncanonical poly(A) polymerase with an unusual RNA-binding motif.
    10. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
      Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ40270

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding HDA PubMed 
    enables guanylyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables poly(A) RNA polymerase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables poly(A) RNA polymerase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables telomerase RNA binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA 3' uridylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in RNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in carbohydrate homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in histone mRNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mRNA 3'-end processing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in miRNA catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of nuclear-transcribed mRNA poly(A) tail shortening IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of telomere maintenance via telomerase IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in poly(A)-dependent snoRNA 3'-end processing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in polyadenylation-dependent ncRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in polyadenylation-dependent ncRNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of 3'-UTR-mediated mRNA stabilization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in rRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of TRAMP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of TRAMP complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		  

    General protein information

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    Preferred Names
    terminal nucleotidyltransferase 4B
    Names
    PAP associated domain containing 5
    PAP-associated domain-containing protein 5
    TUTase 3
    non-canonical poly(A) RNA polymerase PAPD5
    poly(A) RNA polymerase D5, non-canonical
    terminal guanylyltransferase
    terminal nucleotidyltransferase 4A
    terminal uridylyltransferase 3
    topoisomerase-related function protein 4-2
    NP_001035374.2
    NP_001035375.2
    NP_001352252.1
    NP_001352253.1
    XP_011521577.1
    XP_011521578.1
    XP_011521580.1
    XP_047290431.1
    XP_047290432.1
    XP_047290433.1
    XP_054169633.1
    XP_054169634.1
    XP_054169635.1
    XP_054169636.1
    XP_054169637.1
    XP_054169638.1

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001040284.3 → NP_001035374.2  terminal nucleotidyltransferase 4B isoform a

      See identical proteins and their annotated locations for NP_001035374.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
      Source sequence(s)
      AC007597, AC007610, AK300918
      Consensus CDS
      CCDS54006.1
      UniProtKB/TrEMBL
      G4U4J3, H3BQM0
      Related
      ENSP00000396995.3, ENST00000436909.8
      Conserved Domains (1) summary
      COG5260
      Location:199 → 471
      TRF4; DNA polymerase sigma [Replication, recombination and repair]

    2. NM_001040285.3 → NP_001035375.2  terminal nucleotidyltransferase 4B isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the central coding region, compared to variant 1. The resulting isoform (b) lacks an internal segment, compared to isoform a.
      Source sequence(s)
      AC007597, AC007610, AK300918, AL833922
      UniProtKB/Swiss-Prot
      B4DV38, Q8NDF8, Q9NW67, Q9Y6C0
      Conserved Domains (1) summary
      COG5260
      Location:199 → 471
      TRF4; DNA polymerase sigma [Replication, recombination and repair]

    3. NM_001365323.2 → NP_001352252.1  terminal nucleotidyltransferase 4B isoform c

      Status: VALIDATED

      Source sequence(s)
      AC007597, AC007610
      UniProtKB/TrEMBL
      G4U4J3, H3BQM0
      Conserved Domains (1) summary
      COG5260
      Location:194 → 466
      TRF4; DNA polymerase sigma [Replication, recombination and repair]

    4. NM_001365324.3 → NP_001352253.1  terminal nucleotidyltransferase 4B isoform d

      Status: VALIDATED

      Source sequence(s)
      AC007597, AC007610
      Consensus CDS
      CCDS92158.1
      UniProtKB/TrEMBL
      A0A7N4YH79, G4U4J3, H3BQM0
      Related
      ENSP00000455837.3, ENST00000561678.7
      Conserved Domains (1) summary
      COG5260
      Location:214 → 486
      TRF4; DNA polymerase sigma [Replication, recombination and repair]

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      50152911..50235310
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047434476.1 → XP_047290432.1  terminal nucleotidyltransferase 4B isoform X4

      UniProtKB/Swiss-Prot
      B4DV38, Q8NDF8, Q9NW67, Q9Y6C0

    2. XM_011523275.4 → XP_011521577.1  terminal nucleotidyltransferase 4B isoform X1

      UniProtKB/TrEMBL
      G4U4J3, H3BQM0
      Conserved Domains (1) summary
      COG5260
      Location:200 → 472
      TRF4; DNA polymerase sigma [Replication, recombination and repair]

    3. XM_011523276.3 → XP_011521578.1  terminal nucleotidyltransferase 4B isoform X2

      UniProtKB/Swiss-Prot
      B4DV38, Q8NDF8, Q9NW67, Q9Y6C0
      Conserved Domains (1) summary
      COG5260
      Location:200 → 472
      TRF4; DNA polymerase sigma [Replication, recombination and repair]

    4. XM_011523278.3 → XP_011521580.1  terminal nucleotidyltransferase 4B isoform X5

      See identical proteins and their annotated locations for XP_011521580.1

      UniProtKB/TrEMBL
      Q53F79
      Conserved Domains (1) summary
      COG5260
      Location:27 → 300
      TRF4; DNA polymerase sigma [Replication, recombination and repair]

    5. XM_047434477.1 → XP_047290433.1  terminal nucleotidyltransferase 4B isoform X6

      UniProtKB/TrEMBL
      Q53F79

    6. XM_047434475.1 → XP_047290431.1  terminal nucleotidyltransferase 4B isoform X3

      UniProtKB/Swiss-Prot
      B4DV38, Q8NDF8, Q9NW67, Q9Y6C0

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      55950748..56033128
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054313661.1 → XP_054169636.1  terminal nucleotidyltransferase 4B isoform X4

      UniProtKB/Swiss-Prot
      B4DV38, Q8NDF8, Q9NW67, Q9Y6C0

    2. XM_054313658.1 → XP_054169633.1  terminal nucleotidyltransferase 4B isoform X1

      UniProtKB/TrEMBL
      G4U4J3, H3BQM0

    3. XM_054313659.1 → XP_054169634.1  terminal nucleotidyltransferase 4B isoform X2

      UniProtKB/Swiss-Prot
      B4DV38, Q8NDF8, Q9NW67, Q9Y6C0

    4. XM_054313662.1 → XP_054169637.1  terminal nucleotidyltransferase 4B isoform X5

      UniProtKB/TrEMBL
      Q53F79

    5. XM_054313663.1 → XP_054169638.1  terminal nucleotidyltransferase 4B isoform X6

      UniProtKB/TrEMBL
      Q53F79

    6. XM_054313660.1 → XP_054169635.1  terminal nucleotidyltransferase 4B isoform X3

      UniProtKB/Swiss-Prot
      B4DV38, Q8NDF8, Q9NW67, Q9Y6C0

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_022447.1: Suppressed sequence

      Description
      NM_022447.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8NDF8.2 GenPept UniProtKB/Swiss-Prot:Q8NDF8

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