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Trim23 tripartite motif-containing 23 [ Mus musculus (house mouse) ]

Gene ID: 81003, updated on 12-May-2024

Summary

Official Symbol
Trim23provided by MGI
Official Full Name
tripartite motif-containing 23provided by MGI
Primary source
MGI:MGI:1933161
See related
Ensembl:ENSMUSG00000021712 AllianceGenome:MGI:1933161
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
Arfd1; 6330516O20Rik
Summary
Predicted to enable several functions, including GTPase activity; guanyl ribonucleotide binding activity; and identical protein binding activity. Predicted to be involved in cellular protein modification process; intracellular protein transport; and vesicle-mediated transport. Located in cytoplasm and nucleus. Is expressed in ureter. Orthologous to human TRIM23 (tripartite motif containing 23). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in CNS E18 (RPKM 7.0), frontal lobe adult (RPKM 5.5) and 22 other tissues See more
Orthologs
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Genomic context

See Trim23 in Genome Data Viewer
Location:
13 D1; 13 56.35 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (104315187..104339983)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (104178839..104203475)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene small glutamine-rich tetratricopeptide repeat (TPR)-containing, beta Neighboring gene STARR-positive B cell enhancer ABC_E3099 Neighboring gene trafficking protein particle complex 13 Neighboring gene STARR-positive B cell enhancer ABC_E8896 Neighboring gene STARR-positive B cell enhancer ABC_E385 Neighboring gene STARR-seq mESC enhancer starr_35535 Neighboring gene shieldin complex subunit 3 Neighboring gene peptidylprolyl isomerase domain and WD repeat containing 1 Neighboring gene STARR-positive B cell enhancer ABC_E4090 Neighboring gene centromere protein K

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)
  • Endonuclease-mediated (4)  1 citation
  • Targeted (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables GDP binding ISO
Inferred from Sequence Orthology
more info
 
enables GTP binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables GTP binding ISO
Inferred from Sequence Orthology
more info
 
enables GTPase activity ISO
Inferred from Sequence Orthology
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
enables ubiquitin protein ligase activity ISO
Inferred from Sequence Orthology
more info
 
enables ubiquitin-protein transferase activity ISO
Inferred from Sequence Orthology
more info
 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of autophagy ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein modification process ISO
Inferred from Sequence Orthology
more info
 
involved_in protein ubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
 
located_in Golgi membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in lysosomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in lysosomal membrane ISO
Inferred from Sequence Orthology
more info
 
located_in lysosome IEA
Inferred from Electronic Annotation
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
E3 ubiquitin-protein ligase TRIM23
Names
ADP-ribosylation factor domain protein 1, 64kD
ADP-ribosylation factor domain-containing protein 1
GTP-binding protein ARD-1
RING-type E3 ubiquitin transferase TRIM23
tripartite motif protein TRIM23
tripartite motif-containing protein 23
NP_001348467.1
NP_001348468.1
XP_036014122.1

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_001361538.1NP_001348467.1  E3 ubiquitin-protein ligase TRIM23 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC154216, AK039280
    Consensus CDS
    CCDS88515.1
    UniProtKB/Swiss-Prot
    Q8BGX0, Q8C2B6, Q8CDA4, Q8CDA7
    Related
    ENSMUSP00000022225.6, ENSMUST00000022225.12
    Conserved Domains (5) summary
    smart00336
    Location:173219
    BBOX; B-Box-type zinc finger
    cd04158
    Location:406574
    ARD1; (ADP-ribosylation factor domain protein 1 (ARD1)
    cd00021
    Location:125168
    BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
    cd16645
    Location:2877
    mRING-HC-C3HC3D_TRIM23_C-IX; Modified RING finger, HC subclass (C3HC3D-type), found in tripartite motif-containing protein 23 (TRIM23) and similar proteins
    cl25407
    Location:226370
    ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)
  2. NM_001361539.1NP_001348468.1  E3 ubiquitin-protein ligase TRIM23 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC154216
    Consensus CDS
    CCDS88516.1
    Related
    ENSMUSP00000070767.6, ENSMUST00000069187.12
    Conserved Domains (5) summary
    smart00336
    Location:173216
    BBOX; B-Box-type zinc finger
    cd04158
    Location:345513
    ARD1; (ADP-ribosylation factor domain protein 1 (ARD1)
    cd00021
    Location:125168
    BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
    cd16645
    Location:2877
    mRING-HC-C3HC3D_TRIM23_C-IX; Modified RING finger, HC subclass (C3HC3D-type), found in tripartite motif-containing protein 23 (TRIM23) and similar proteins
    cl25407
    Location:214309
    ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

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
    104315187..104339983
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036158229.1XP_036014122.1  E3 ubiquitin-protein ligase TRIM23 isoform X1

    Conserved Domains (5) summary
    smart00502
    Location:259403
    BBC; B-Box C-terminal domain
    cd16645
    Location:61110
    mRING-HC-C3HC3D_TRIM23_C-IX; Modified RING finger, HC subclass (C3HC3D-type), found in tripartite motif-containing protein 23 (TRIM23) and similar proteins
    cd19773
    Location:156205
    Bbox2_TRIM23_C-IX_rpt1; first B-box-type 2 zinc finger found in tripartite motif-containing protein 23 (TRIM23) and similar proteins
    cd19774
    Location:207256
    Bbox2_TRIM23_C-IX_rpt2; second B-box-type 2 zinc finger found in tripartite motif-containing protein 23 (TRIM23) and similar proteins
    cl38936
    Location:424510
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_030731.3: Suppressed sequence

    Description
    NM_030731.3: This RefSeq was removed because currently there is insufficient support for the transcript and protein.