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Tut4 terminal uridylyl transferase 4 [ Mus musculus (house mouse) ]

Gene ID: 230594, updated on 5-Mar-2024

Summary

Official Symbol
Tut4provided by MGI
Official Full Name
terminal uridylyl transferase 4provided by MGI
Primary source
MGI:MGI:2445126
See related
Ensembl:ENSMUSG00000034610 AllianceGenome:MGI:2445126
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
PPAPD3; Tent3a; Zcchc11; mKIAA0191; 6030404K05Rik; 9230115F04Rik
Summary
Enables RNA uridylyltransferase activity and miRNA binding activity. Involved in several processes, including RNA metabolic process; interleukin-6-mediated signaling pathway; and positive regulation of interleukin-6 production. Acts upstream of or within negative regulation of NF-kappaB transcription factor activity and regulation of lipopolysaccharide-mediated signaling pathway. Located in cytoplasm and nucleus. Is expressed in 1-cell stage embryo; 2-cell stage embryo; primary oocyte; and secondary oocyte. Human ortholog(s) of this gene implicated in liver benign neoplasm. Orthologous to human TUT4 (terminal uridylyl transferase 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 17.3), limb E14.5 (RPKM 15.9) and 28 other tissues See more
Orthologs
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Genomic context

See Tut4 in Genome Data Viewer
Location:
4 C7; 4 50.55 cM
Exon count:
33
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (108316607..108416612)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (108459410..108559415)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 32297 Neighboring gene STARR-seq mESC enhancer starr_11045 Neighboring gene glutathione peroxidase 7 Neighboring gene predicted gene, 40223 Neighboring gene STARR-positive B cell enhancer ABC_E3501 Neighboring gene ribosomal protein L9 pseudogene Neighboring gene STARR-seq mESC enhancer starr_11046 Neighboring gene predicted gene, 24967 Neighboring gene predicted gene, 57731 Neighboring gene 40S ribosomal protein S24 pseudogene Neighboring gene predicted gene, 23138 Neighboring gene predicted gene, 25827 Neighboring gene predicted gene, 22345 Neighboring gene STARR-positive B cell enhancer ABC_E1036 Neighboring gene PRP38 pre-mRNA processing factor 38 (yeast) domain containing A Neighboring gene origin recognition complex, subunit 1 Neighboring gene predicted gene 12743

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (5)  1 citation
  • Endonuclease-mediated (3) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • KIAA0191

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA uridylyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables RNA uridylyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA uridylyltransferase activity ISO
Inferred from Sequence Orthology
more info
 
enables RNA uridylyltransferase activity TAS
Traceable Author Statement
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables miRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables nucleotidyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
enables uridylyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables uridylyltransferase activity IMP
Inferred from Mutant Phenotype
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
 
involved_in RNA 3' uridylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in RNA 3' uridylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in RNA 3'-end processing IDA
Inferred from Direct Assay
more info
PubMed 
involved_in RNA 3'-end processing ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cytokine production IDA
Inferred from Direct Assay
more info
PubMed 
involved_in interleukin-6-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in miRNA catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in miRNA metabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in miRNA metabolic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of NF-kappaB transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
involved_in oocyte maturation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in polyuridylation-dependent mRNA catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of interleukin-6 production IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in pre-miRNA processing ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of lipopolysaccharide-mediated signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within regulatory ncRNA-mediated gene silencing IEA
Inferred from Electronic Annotation
more info
 
involved_in retrotransposon silencing by mRNA destabilization ISO
Inferred from Sequence Orthology
more info
 
involved_in stem cell population maintenance ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasmic ribonucleoprotein granule ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
terminal uridylyltransferase 4
Names
TUTase 4
zinc finger CCHC domain-containing protein 11
zinc finger, CCHC domain containing 11
NP_001366592.1
NP_001366593.1
NP_001366594.1
NP_780681.2
XP_006503043.1
XP_006503046.1
XP_017175628.1
XP_030109297.1
XP_036019916.1
XP_036019917.1
XP_036019918.1
XP_036019919.1
XP_036019920.1
XP_036019921.1
XP_036019922.1

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_001379663.1NP_001366592.1  terminal uridylyltransferase 4 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AL626783, AL627238
    Conserved Domains (6) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    COG5082
    Location:12931382
    AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
    COG5260
    Location:9461278
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:285621
    TUTase; TUTase nucleotidyltransferase domain
  2. NM_001379664.1NP_001366593.1  terminal uridylyltransferase 4 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL626783, AL627238
    Conserved Domains (6) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:12971379
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    COG5260
    Location:9461278
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:285621
    TUTase; TUTase nucleotidyltransferase domain
  3. NM_001379665.1NP_001366594.1  terminal uridylyltransferase 4 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL626783, AL627238
    Conserved Domains (6) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:12971375
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    COG5260
    Location:9461278
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:285621
    TUTase; TUTase nucleotidyltransferase domain
  4. NM_175472.4NP_780681.2  terminal uridylyltransferase 4 isoform 3

    See identical proteins and their annotated locations for NP_780681.2

    Status: VALIDATED

    Source sequence(s)
    AL626783, AL627238
    Consensus CDS
    CCDS18451.1
    UniProtKB/Swiss-Prot
    A2A8R8, B2RX14, Q3UYT6, Q5DU43
    Related
    ENSMUSP00000044836.6, ENSMUST00000043368.12
    Conserved Domains (5) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:12971375
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    COG5260
    Location:9461278
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    108316607..108416612
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036164023.1XP_036019916.1  terminal uridylyltransferase 4 isoform X1

    Conserved Domains (6) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    COG5082
    Location:13041393
    AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
    COG5260
    Location:9461289
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:285621
    TUTase; TUTase nucleotidyltransferase domain
  2. XM_036164025.1XP_036019918.1  terminal uridylyltransferase 4 isoform X3

    Conserved Domains (6) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    COG5082
    Location:13041393
    AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
    COG5260
    Location:9461289
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:285621
    TUTase; TUTase nucleotidyltransferase domain
  3. XM_036164024.1XP_036019917.1  terminal uridylyltransferase 4 isoform X2

    Conserved Domains (6) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:13081390
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    COG5260
    Location:9461289
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:285621
    TUTase; TUTase nucleotidyltransferase domain
  4. XM_036164026.1XP_036019919.1  terminal uridylyltransferase 4 isoform X4

    Conserved Domains (6) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:13081390
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    COG5260
    Location:9461289
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:285621
    TUTase; TUTase nucleotidyltransferase domain
  5. XM_036164027.1XP_036019920.1  terminal uridylyltransferase 4 isoform X5

    Conserved Domains (6) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:13081386
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    COG5260
    Location:9461289
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:285621
    TUTase; TUTase nucleotidyltransferase domain
  6. XM_036164028.1XP_036019921.1  terminal uridylyltransferase 4 isoform X6

    Conserved Domains (6) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:13081386
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    COG5260
    Location:9461289
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:285621
    TUTase; TUTase nucleotidyltransferase domain
  7. XM_017320139.3XP_017175628.1  terminal uridylyltransferase 4 isoform X7

    UniProtKB/TrEMBL
    A2A8R7
    Related
    ENSMUSP00000095538.3, ENSMUST00000097925.9
    Conserved Domains (5) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    COG5082
    Location:12931382
    AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
    COG5260
    Location:9461278
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
  8. XM_006502980.4XP_006503043.1  terminal uridylyltransferase 4 isoform X8

    Conserved Domains (5) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:12971379
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    COG5260
    Location:9461278
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
  9. XM_030253437.2XP_030109297.1  terminal uridylyltransferase 4 isoform X9

    UniProtKB/Swiss-Prot
    A2A8R8, B2RX14, Q3UYT6, Q5DU43
    Conserved Domains (5) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    PTZ00368
    Location:12971375
    PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    COG5260
    Location:9461278
    TRF4; DNA polymerase sigma [Replication, recombination and repair]
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
  10. XM_036164029.1XP_036019922.1  terminal uridylyltransferase 4 isoform X10

    UniProtKB/TrEMBL
    A0A0A0MQJ6
    Conserved Domains (4) summary
    cd05402
    Location:9881106
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase
    pfam19088
    Location:285620
    TUTase; TUTase nucleotidyltransferase domain
  11. XM_006502983.5XP_006503046.1  terminal uridylyltransferase 4 isoform X11

    UniProtKB/TrEMBL
    A0A0A0MQJ6
    Related
    ENSMUSP00000120172.2, ENSMUST00000155068.2
    Conserved Domains (3) summary
    cd05402
    Location:395507
    NT_PAP_TUTase; Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases
    TIGR00600
    Location:2366
    rad2; DNA excision repair protein (rad2)
    pfam03828
    Location:648697
    PAP_assoc; Cid1 family poly A polymerase

RNA

  1. XR_004941868.1 RNA Sequence