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Trim38 tripartite motif-containing 38 [ Mus musculus (house mouse) ]

Gene ID: 214158, updated on 27-Feb-2024

Summary

Official Symbol
Trim38provided by MGI
Official Full Name
tripartite motif-containing 38provided by MGI
Primary source
MGI:MGI:2684869
See related
Ensembl:ENSMUSG00000064140 AllianceGenome:MGI:2684869
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
Gm23
Summary
Predicted to enable several functions, including protein homodimerization activity; transcription coactivator activity; and ubiquitin protein ligase activity. Acts upstream of or within several processes, including cellular protein metabolic process; negative regulation of defense response to virus; and positive regulation of viral genome replication. Predicted to be active in cytosol and nucleoplasm. Orthologous to human TRIM38 (tripartite motif containing 38). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Low expression observed in reference dataset See more
Orthologs
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Genomic context

See Trim38 in Genome Data Viewer
Location:
13 A3.1; 13 9.92 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (23962483..23975721)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (23778500..23791731)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_33974 Neighboring gene STARR-positive B cell enhancer ABC_E4061 Neighboring gene H3 clustered histone 1 Neighboring gene H1.1 linker histone, cluster member Neighboring gene STARR-positive B cell enhancer ABC_E8516 Neighboring gene predicted gene 11337 Neighboring gene solute carrier family 17 (sodium phosphate), member 2

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)
  • Targeted (1) 
  • Endonuclease-mediated (5) 

General gene information

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein homodimerization activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein kinase binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables transcription coactivator activity ISO
Inferred from Sequence Orthology
more info
 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables ubiquitin protein ligase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within immune system process IEA
Inferred from Electronic Annotation
more info
 
involved_in innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of defense response to virus IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of NF-kappaB transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of NF-kappaB transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of autophagy IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of canonical NF-kappaB signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of canonical NF-kappaB signal transduction ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of viral entry into host cell ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of viral genome replication IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of viral genome replication IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within protein K48-linked ubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within protein K48-linked ubiquitination IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in protein polyubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within regulation of interferon-beta production IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within regulation of interferon-beta production IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of protein localization IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in regulation of viral entry into host cell IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
E3 ubiquitin-protein ligase TRIM38
Names
E3 SUMO-protein ligase TRIM38
RING finger protein 15
tripartite motif-containing protein 38
zinc finger protein RoRet
NP_001025106.1
XP_006516700.1
XP_011242605.1

NCBI Reference Sequences (RefSeq)

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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_001029935.2NP_001025106.1  E3 ubiquitin-protein ligase TRIM38

    See identical proteins and their annotated locations for NP_001025106.1

    Status: VALIDATED

    Source sequence(s)
    AL590388
    Consensus CDS
    CCDS26370.1
    UniProtKB/Swiss-Prot
    B9EKD3, Q5SZ99
    Related
    ENSMUSP00000073709.3, ENSMUST00000074067.4
    Conserved Domains (4) summary
    TIGR02168
    Location:138262
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    cd15815
    Location:282466
    SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)
    cl00034
    Location:93127
    Bbox_SF; B-box-type zinc finger superfamily
    cl17238
    Location:1561
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

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_000079.7 Reference GRCm39 C57BL/6J

    Range
    23962483..23975721
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006516637.3XP_006516700.1  E3 ubiquitin-protein ligase TRIM38 isoform X1

    See identical proteins and their annotated locations for XP_006516700.1

    UniProtKB/Swiss-Prot
    B9EKD3, Q5SZ99
    Related
    ENSMUSP00000153240.2, ENSMUST00000226039.2
    Conserved Domains (4) summary
    TIGR02168
    Location:138262
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    cd15815
    Location:282466
    SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)
    cl00034
    Location:93127
    Bbox_SF; B-box-type zinc finger superfamily
    cl17238
    Location:1561
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
  2. XM_011244303.2XP_011242605.1  E3 ubiquitin-protein ligase TRIM38 isoform X1

    See identical proteins and their annotated locations for XP_011242605.1

    UniProtKB/Swiss-Prot
    B9EKD3, Q5SZ99
    Conserved Domains (4) summary
    TIGR02168
    Location:138262
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    cd15815
    Location:282466
    SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)
    cl00034
    Location:93127
    Bbox_SF; B-box-type zinc finger superfamily
    cl17238
    Location:1561
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain