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TUT4 terminal uridylyl transferase 4 [ Homo sapiens (human) ]

Gene ID: 23318, updated on 18-Sep-2022

Summary

Official Symbol
TUT4provided by HGNC
Official Full Name
terminal uridylyl transferase 4provided by HGNC
Primary source
HGNC:HGNC:28981
See related
Ensembl:ENSG00000134744 MIM:613692; AllianceGenome:HGNC:28981
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
PAPD3; TENT3A; ZCCHC11
Summary
ZCCHC11 is an RNA uridyltransferase (EC 2.7.7.52) that uses UTP to add uridines to the 3-prime end of substrate RNA molecules (Jones et al., 2009 [PubMed 19701194]).[supplied by OMIM, Jan 2011]
Expression
Ubiquitous expression in testis (RPKM 11.1), thyroid (RPKM 9.7) and 25 other tissues See more
Orthologs
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Genomic context

See TUT4 in Genome Data Viewer
Location:
1p32.3
Exon count:
33
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (52423275..52553463, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (52304743..52434560, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (52888947..53018764, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA U13 Neighboring gene Sharpr-MPRA regulatory region 15542 Neighboring gene pre-mRNA processing factor 38A Neighboring gene uncharacterized LOC105378723 Neighboring gene eukaryotic translation elongation factor 1 gamma pseudogene 7 Neighboring gene glutathione peroxidase 7

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ42878, DKFZp779C1943

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables RNA uridylyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA uridylyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA uridylyltransferase activity TAS
Traceable Author Statement
more info
 
enables miRNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables nucleotidyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in RNA 3' uridylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in RNA 3' uridylation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in RNA 3'-end processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in RNA 3'-end processing IDA
Inferred from Direct Assay
more info
PubMed 
NOT involved_in histone mRNA catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in miRNA catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in miRNA metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in miRNA metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of transposition, RNA-mediated IDA
Inferred from Direct Assay
more info
PubMed 
involved_in nuclear-transcribed mRNA poly(A) tail shortening TAS
Traceable Author Statement
more info
 
involved_in oocyte maturation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in polyuridylation-dependent mRNA catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in pre-miRNA processing IDA
Inferred from Direct Assay
more info
PubMed 
involved_in pre-miRNA processing IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in stem cell population maintenance IMP
Inferred from Mutant Phenotype
more info
PubMed 

General protein information

Preferred Names
terminal uridylyltransferase 4
Names
PAP associated domain containing 3
TUTase 4
zinc finger CCHC domain-containing protein 11
zinc finger CCHC-type containing 11
zinc finger, CCHC domain containing 11
NP_001009881.1
NP_056084.1
XP_005270733.1
XP_005270735.1
XP_005270736.1
XP_005270737.1
XP_005270738.1
XP_005270739.1
XP_011539399.1
XP_011539401.1
XP_016856292.1
XP_016856293.1
XP_016856294.1
XP_016856295.1
XP_016856296.1
XP_016856297.1
XP_016856299.1
XP_016856307.1
XP_047272280.1
XP_047272281.1
XP_047272282.1
XP_047272283.1
XP_047272285.1
XP_047272286.1
XP_047272288.1
XP_047272290.1
XP_047272295.1
XP_047272296.1
XP_047272303.1
XP_047272305.1
XP_047272306.1
XP_047272307.1
XP_047272311.1
XP_047272320.1
XP_047272325.1
XP_047272327.1
XP_047272336.1
XP_047272337.1
XP_047272344.1
XP_047272345.1
XP_047272348.1
XP_047272350.1
XP_047272354.1
XP_047272362.1
XP_047272365.1
XP_047272367.1
XP_047272369.1
XP_047272372.1
XP_047272373.1
XP_047272377.1
XP_047272384.1

NCBI Reference Sequences (RefSeq)

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_001009881.3NP_001009881.1  terminal uridylyltransferase 4 isoform a

    See identical proteins and their annotated locations for NP_001009881.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AK025698, AL138849, AL591167, BC131734, DA748708
    Consensus CDS
    CCDS30715.1
    UniProtKB/Swiss-Prot
    Q5TAX3
    UniProtKB/TrEMBL
    A0A0C4DFM7
    Related
    ENSP00000257177.4, ENST00000257177.9
    Conserved Domains (6) summary
    cd05402
    Location:9711089
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    pfam03828
    Location:628677
    PAP_assoc; Cid1 family poly A polymerase
    cl00325
    Location:97199
    Ribosomal_L4; Ribosomal protein L4/L1 family
    cl25764
    Location:13951620
    PAT1; Topoisomerase II-associated protein PAT1
    cl26705
    Location:12801375
    AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
    cl27230
    Location:9291261
    PAP_assoc; Cid1 family poly A polymerase
  2. NM_015269.2NP_056084.1  terminal uridylyltransferase 4 isoform b

    See identical proteins and their annotated locations for NP_056084.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site at the 5' end of a coding exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
    Source sequence(s)
    BC035820, D83776, DA748708, R60512
    Consensus CDS
    CCDS30716.1
    UniProtKB/Swiss-Prot
    Q5TAX3, Q86XZ3
    Related
    ENSP00000360599.3, ENST00000371544.7
    Conserved Domains (4) summary
    cd05402
    Location:9711089
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    pfam03828
    Location:11841237
    PAP_assoc; Cid1 family poly A polymerase
    pfam09786
    Location:13741515
    CytochromB561_N; Cytochrome B561, N terminal
    pfam14650
    Location:14221483
    FAM75; FAM75 family

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    52423275..52553463 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017000804.3XP_016856293.1  terminal uridylyltransferase 4 isoform X16

  2. XM_047416324.1XP_047272280.1  terminal uridylyltransferase 4 isoform X3

  3. XM_047416327.1XP_047272283.1  terminal uridylyltransferase 4 isoform X6

  4. XM_005270678.3XP_005270735.1  terminal uridylyltransferase 4 isoform X2

    Conserved Domains (5) summary
    cd05402
    Location:9711089
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    pfam03828
    Location:11841237
    PAP_assoc; Cid1 family poly A polymerase
    pfam07223
    Location:13821649
    DUF1421; Protein of unknown function (DUF1421)
    pfam09786
    Location:13741515
    CytochromB561_N; Cytochrome B561, N terminal
    pfam14650
    Location:14221483
    FAM75; FAM75 family
  5. XM_047416326.1XP_047272282.1  terminal uridylyltransferase 4 isoform X5

    UniProtKB/Swiss-Prot
    Q86XZ3
  6. XM_011541097.2XP_011539399.1  terminal uridylyltransferase 4 isoform X1

    See identical proteins and their annotated locations for XP_011539399.1

    Conserved Domains (7) summary
    cd05402
    Location:9711089
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:12801375
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    PRK14907
    Location:97199
    rplD; 50S ribosomal protein L4; Provisional
    PHA03247
    Location:14061592
    PHA03247; large tegument protein UL36; Provisional
    COG5260
    Location:9291261
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    pfam03828
    Location:628677
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:265600
    TUTase; TUTase nucleotidyltransferase domain
  7. XM_047416325.1XP_047272281.1  terminal uridylyltransferase 4 isoform X4

    UniProtKB/TrEMBL
    A0A0C4DFM7
  8. XM_047416416.1XP_047272372.1  terminal uridylyltransferase 4 isoform X42

  9. XM_047416421.1XP_047272377.1  terminal uridylyltransferase 4 isoform X44

  10. XM_047416417.1XP_047272373.1  terminal uridylyltransferase 4 isoform X43

  11. XM_017000808.2XP_016856297.1  terminal uridylyltransferase 4 isoform X36

  12. XM_017000810.3XP_016856299.1  terminal uridylyltransferase 4 isoform X40

  13. XM_047416409.1XP_047272365.1  terminal uridylyltransferase 4 isoform X38

  14. XM_005270682.3XP_005270739.1  terminal uridylyltransferase 4 isoform X33

    Conserved Domains (6) summary
    cd05402
    Location:860978
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:11691264
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    pfam03828
    Location:10731126
    PAP_assoc; Cid1 family poly A polymerase
    pfam07223
    Location:12721539
    DUF1421; Protein of unknown function (DUF1421)
    pfam09786
    Location:12641405
    CytochromB561_N; Cytochrome B561, N terminal
    pfam14650
    Location:13121373
    FAM75; FAM75 family
  15. XM_047416413.1XP_047272369.1  terminal uridylyltransferase 4 isoform X41

  16. XM_047416389.1XP_047272345.1  terminal uridylyltransferase 4 isoform X31

  17. XM_011541099.2XP_011539401.1  terminal uridylyltransferase 4 isoform X29

    Conserved Domains (6) summary
    cd05402
    Location:873991
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:11821277
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    pfam03828
    Location:10861139
    PAP_assoc; Cid1 family poly A polymerase
    pfam07223
    Location:12851552
    DUF1421; Protein of unknown function (DUF1421)
    pfam09786
    Location:12771418
    CytochromB561_N; Cytochrome B561, N terminal
    pfam14650
    Location:13251386
    FAM75; FAM75 family
  18. XM_047416380.1XP_047272336.1  terminal uridylyltransferase 4 isoform X26

  19. XM_047416371.1XP_047272327.1  terminal uridylyltransferase 4 isoform X24

  20. XM_047416355.1XP_047272311.1  terminal uridylyltransferase 4 isoform X21

  21. XM_047416364.1XP_047272320.1  terminal uridylyltransferase 4 isoform X22

  22. XM_017000803.2XP_016856292.1  terminal uridylyltransferase 4 isoform X9

  23. XM_047416329.1XP_047272285.1  terminal uridylyltransferase 4 isoform X7

  24. XM_047416332.1XP_047272288.1  terminal uridylyltransferase 4 isoform X10

  25. XM_047416394.1XP_047272350.1  terminal uridylyltransferase 4 isoform X34

  26. XM_047416388.1XP_047272344.1  terminal uridylyltransferase 4 isoform X30

  27. XM_047416411.1XP_047272367.1  terminal uridylyltransferase 4 isoform X39

  28. XM_047416406.1XP_047272362.1  terminal uridylyltransferase 4 isoform X37

  29. XM_047416392.1XP_047272348.1  terminal uridylyltransferase 4 isoform X32

  30. XM_047416398.1XP_047272354.1  terminal uridylyltransferase 4 isoform X35

  31. XM_017000806.2XP_016856295.1  terminal uridylyltransferase 4 isoform X25

  32. XM_017000807.3XP_016856296.1  terminal uridylyltransferase 4 isoform X28

  33. XM_047416369.1XP_047272325.1  terminal uridylyltransferase 4 isoform X23

  34. XM_047416381.1XP_047272337.1  terminal uridylyltransferase 4 isoform X27

  35. XM_047416334.1XP_047272290.1  terminal uridylyltransferase 4 isoform X11

  36. XM_047416349.1XP_047272305.1  terminal uridylyltransferase 4 isoform X17

  37. XM_047416340.1XP_047272296.1  terminal uridylyltransferase 4 isoform X13

  38. XM_047416330.1XP_047272286.1  terminal uridylyltransferase 4 isoform X8

  39. XM_047416339.1XP_047272295.1  terminal uridylyltransferase 4 isoform X12

  40. XM_047416350.1XP_047272306.1  terminal uridylyltransferase 4 isoform X18

  41. XM_017000805.3XP_016856294.1  terminal uridylyltransferase 4 isoform X20

  42. XM_047416347.1XP_047272303.1  terminal uridylyltransferase 4 isoform X15

  43. XM_047416351.1XP_047272307.1  terminal uridylyltransferase 4 isoform X19

  44. XM_005270681.3XP_005270738.1  terminal uridylyltransferase 4 isoform X14

    Conserved Domains (6) summary
    cd05402
    Location:9711089
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:12421337
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    pfam03828
    Location:11461199
    PAP_assoc; Cid1 family poly A polymerase
    pfam07223
    Location:13451612
    DUF1421; Protein of unknown function (DUF1421)
    pfam09786
    Location:13371478
    CytochromB561_N; Cytochrome B561, N terminal
    pfam14650
    Location:13851446
    FAM75; FAM75 family
  45. XM_005270679.3XP_005270736.1  terminal uridylyltransferase 4 isoform X3

    Conserved Domains (6) summary
    cd05402
    Location:9711089
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:12801370
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    pfam03828
    Location:11841237
    PAP_assoc; Cid1 family poly A polymerase
    pfam07223
    Location:13781645
    DUF1421; Protein of unknown function (DUF1421)
    pfam09786
    Location:13701511
    CytochromB561_N; Cytochrome B561, N terminal
    pfam14650
    Location:14181479
    FAM75; FAM75 family
  46. XM_005270680.4XP_005270737.1  terminal uridylyltransferase 4 isoform X6

    See identical proteins and their annotated locations for XP_005270737.1

    Conserved Domains (5) summary
    cd05402
    Location:9711089
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:12801370
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    pfam03828
    Location:11841237
    PAP_assoc; Cid1 family poly A polymerase
    pfam09786
    Location:13701511
    CytochromB561_N; Cytochrome B561, N terminal
    pfam14650
    Location:14181479
    FAM75; FAM75 family
  47. XM_005270676.3XP_005270733.1  terminal uridylyltransferase 4 isoform X1

    See identical proteins and their annotated locations for XP_005270733.1

    Conserved Domains (7) summary
    cd05402
    Location:9711089
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:12801375
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    PRK14907
    Location:97199
    rplD; 50S ribosomal protein L4; Provisional
    PHA03247
    Location:14061592
    PHA03247; large tegument protein UL36; Provisional
    COG5260
    Location:9291261
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    pfam03828
    Location:628677
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:265600
    TUTase; TUTase nucleotidyltransferase domain
  48. XM_047416428.1XP_047272384.1  terminal uridylyltransferase 4 isoform X46

  49. XM_017000818.2XP_016856307.1  terminal uridylyltransferase 4 isoform X45

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    52304743..52434560 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001009882.1: Suppressed sequence

    Description
    NM_001009882.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.