TRIM32

protein-coding

tripartite motif containing 32, the group of Tripartite motif family|Ring finger proteins

Gene summary

The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. The protein localizes to cytoplasmic bodies. The protein has also been localized to the nucleus, where it interacts with the activation domain of the HIV-1 Tat protein. The Tat protein activates transcription of HIV-1 genes. [provided by RefSeq, Jul 2008]

Previous symbols:
  • LGMD2H

MANE transcript

NM_012210.4

Inheritance

AR

ClinVar variants

P:81U:401B:284

Top phenotype

Bardet-Biedl syndrome 11

gnomAD constraint

pLI —, LoF o/e 0.45

Max pathogenic AF

—

Genomic locus

chr9:116,687,305-116,701,300

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~14.0 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

autosomal recessive limb-girdle muscular dystrophy type 2HDEFINITIVE

Inheritance Pattern: AR

Disease ID:MONDO:0009683

Submitter: G2P

autosomal recessive limb-girdle muscular dystrophy type 2HSUPPORTIVE

Inheritance Pattern: AR

Disease ID:MONDO:0009683

Submitter: Orphanet

Bardet-Biedl syndromeSUPPORTIVE

Inheritance Pattern: AR

Disease ID:MONDO:0015229

Submitter: Orphanet

autosomal recessive limb-girdle muscular dystrophy type 2HSTRONG

Inheritance Pattern: AR

Disease ID:MONDO:0009683

Submitter: PanelApp Australia

Bardet-Biedl syndrome 11LIMITED

Inheritance Pattern: AR

Disease ID:MONDO:0014439

Submitter: ClinGen

*TRIM32* was first asserted in relation to autosomal recessive Bardet-Biedl syndrome in a family reported in 2006 (Chiang et al., PMID: 16606853). The phenotypes were consistent with other forms of Bardet-Biedl syndrome, including obesity, pigmentary retinopathy, polydactyly, hypogonadism, kidney and heart abnormalities, and/or intellectual impairment. *TRIM32* variants have separately been asserted in relation to autosomal recessive limb-girdle muscular dystrophy as early as 2002 (Frosk et al., PMID: 11822024). Per criteria outlined by the ClinGen Lumping & Splitting Working Group, the cases diagnosed as Bardet-Biedl syndrome were found to be distinguishable from the limb-girdle muscular dystrophy cases based on phenotype and disease mechanism, despite their matching mode of inheritance (autosomal recessive). Therefore, a split curation was recommended for Bardet-Biedl syndrome 11 ()MIM# 615988), while *TRIM32* has already been separately curated for autosomal recessive limb-girdle muscular dystrophy (MIM# 254110, MONDO:0015152). This curation includes one missense variant identified in the homozygous state in four affected patients from one consanguineous Israeli Bedouin family in one publication (PMID: 16606853). Interestingly, the variant is located in the B-box-2 domain, in which variants have not yet been observed to be involved in the pathogenesis of limb-girdle muscular dystrophy (PMID: 16606853, PMID: 38304327). The experimental evidence supporting the relationship of *TRIM32* to Bardet-Biedl syndrome includes data from expression studies and animal models. *TRIM32* is also known as *BBS11* and encodes tripartite motif-containing protein 32, an E3 ubiquitin ligase that is responsible for protein degradation (PMID: 19349376) and known to regulate autophagy (PMID: 33802079). *TRIM32* is expressed in a pattern that matches other BBS-related genes (PMID: 11822024). Knockdown of the *trim32* ortholog in zebrafish results in a phenotype consistent with BBS (PMID: 16606853). In summary, *TRIM32* has limited evidence of association with autosomal recessive Bardet-Biedl syndrome 11 (MIM#615988, MONDO:0014439). Additional case evidence will be requried for this gene-disease association to reach a mroe definitive classification. This clinical validity classification was approved by the ClinGen Retina Gene Curation Expert Panel on July 11th, 2024 (SOP version 10).

Bardet-Biedl syndrome 11LIMITED

Inheritance Pattern: AR

Disease ID:MONDO:0014439

Submitter: PanelApp Australia

autosomal recessive limb-girdle muscular dystrophy type 2HDEFINITIVE

Inheritance Pattern: AR

Disease ID:MONDO:0009683

Submitter: Natera

autosomal recessive limb-girdle muscular dystrophyDEFINITIVE

Inheritance Pattern: AR

Disease ID:MONDO:0015152

Submitter: ClinGen

TRIM32 was first reported in relation to autosomal recessive limb-girdle muscular dystrophy in 2002 (Frosk et al., PMID:11822024). At least five unique variants (e.g. missense, in-frame indel, nonsense, frameshift, large deletion, etc) have been reported in humans. Evidence supporting this gene-disease relationship includes case-level data, segregation data, and experimental data. A founder variant in this gene, D487N, was first characterized by Frosk et al as causative for an LGMD in a Hutterite population, stemming from Eastern Europe. A follow-up publication by Schoser et al (PMID:15786463) observed that Hutterite LGMD probands and German sarcotubular myopathy probands shared this same variant and similar phenotypic features, concluding that both were part of the same spectrum of disorder. Since this initial characterization, several isolated variants have been reported in at least five other probands in four publications (PMIDs: 17994549, 19492423, 19303295, 31309175). In the initial pubication the D487N variant also segregated with disease in 18 additional probands in four families, yielding a maximum LOD score of 7.61. The mechanism for disease appears to be biallelic loss of function, with the disruption of the c-terminal NHL repeats impacting protein interactions and affecting proteins important to the skeletal muscle. However, no exact protein has been implicated. Of note, a variant in the TRIM32 B-box domain has also been implicated in Bardet-Biedl Syndrome. Due to the significant phenotypic and mechanistic differences, this assertion will be assessed separately. This gene-disease association is primarily supported by multiple animal models, with both a TRIM32 Knock-Out model and a D487N Knock-In model recapitulating phenotypes of the human probands such as muscle weakness and atrophy. In summary, TRIM32 is definitively associated with autosomal recessive limb-girdle muscular dystrophy. This has been repeatedly demonstrated in both the research and clinical diagnostic settings, and has been upheld over time. This classification was approved by the ClinGen Limb-Girdle Muscular Dystrophy GCEP on Nov. 5, 2020 (SOP Version 7). This gene curation was re-approved and published on 11/14/24 by the Muscular Dystrophies and Myopathies GCEP to reflect the change in the panel's name from LGMD GCEP to MDM GCEP. As part of this process, the genetic evidence was re-scored in accordance with SOP version 11.

Bardet-Biedl syndrome 11STRONG

Inheritance Pattern: AR

Disease ID:MONDO:0014439

Submitter: Labcorp Genetics (formerly Invitae)

autosomal recessive limb-girdle muscular dystrophy type 2HSTRONG

Inheritance Pattern: AR

Disease ID:MONDO:0009683

Submitter: Labcorp Genetics (formerly Invitae)

Bardet-Biedl syndrome 11LIMITED

Inheritance Pattern: AR

Disease ID:MONDO:0014439

Submitter: G2P

Bardet-Biedl syndrome 11LIMITED

Inheritance Pattern: Unknown

Disease ID:MONDO:0014439

Submitter: Natera

Clinical Genomic Database (CGD)

Bardet-Biedl syndrome 11AR

Manifestation: Craniofacial; Dermatologic; Gastrointestinal; Genitourinary; Endocrine; Musculoskeletal; Neurologic; Ophthalmologic; Renal

Intervention: Endocrine

Rationale: Medical management of obesity with melanocortin-4 receptor (MC4R) agonist (setmelanotide) may be beneficial

Refs: 4269389; 10399877; 11822024; 15886712; 15580560; 16243356; 15786463; 16606853; 17994549; 19492423; 20301537; 20177705; 21775502; 22981120; 36356613Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to TRIM32 variants in ClinVar

14 Conditions Cataloged
Bardet-Biedl syndromeTotal: 567
TRIM32-related disorderTotal: 284
not providedTotal: 218
Sarcotubular myopathyTotal: 180
Bardet-Biedl syndrome 11Total: 174
Inborn genetic diseasesTotal: 80
not specifiedTotal: 61
Retinal dystrophyTotal: 5

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_012210.4. Only rare variants are included.

We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.

Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.

EffectPLPVUSLBBSum
synonymous
2
clinvar
274
clinvar
276
missense
1
clinvar
6
clinvar
397
clinvar
9
clinvar
1
clinvar
414
nonsense
12
clinvar
11
clinvar
1
clinvar
24
start loss
0
frameshift
21
clinvar
30
clinvar
1
clinvar
52
splice donor/acceptor (+/-2bp)
0
Total34474012831766

Highest pathogenic variant AF is 0.00007620639

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 28 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_012210.4RefSeqNP_036342.21MANE Select
ENST00000450136.2EnsemblENSP00000408292.11MANE Select
NM_001099679.2RefSeqNP_001093149.11Standard
NM_001379048.1RefSeqNP_001365977.11Standard

Model Organisms & Knockout Phenotypes

Observed phenotypic effects in mouse and zebrafish models

Gene / ModelOrganismObserved Phenotype
trim32Danio rerio

Structure: pronephric duct

Quality: cystic

abnormal

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • Ubiquitin mediated proteolysis - Homo sapiens (human)
  • Regulation of innate immune responses to cytosolic DNA
  • Innate Immune System
  • Immune System
  • Adaptive Immune System

Biological Process

  • protein polyubiquitination
  • tissue homeostasis
  • ubiquitin-dependent protein catabolic process
  • actin ubiquitination
  • response to UV

Molecular Function

  • transcription coactivator activity
  • RNA binding
  • ubiquitin-protein transferase activity
  • protein binding
  • zinc ion binding

Cellular Component

  • nucleus
  • cytoplasm
  • cytosol
  • striated muscle myosin thick filament

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000450136
Coding exons
1
Length
13999
Individuals with no LoFs
125697
Homozygous LoFs
0
Heterozygous LoFs
51
Defined
125748
p
0.000203
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense0.8273353800.8810.00002454253
Missense (PolyPhen)93125.720.739721505
Synonymous0.6191341430.9340.000007461392
Loss of Function1.98715.40.4558.06e-7198

Population LoF Frequency

PopulationCAFp-valueStatus
African0.000250.00025rare
Latino/Admixed American0.000290.00029rare
Ashkenazi Jewish0.000600.00060rare
East Asian0.000270.00027rare
Finnish0.0000460.000046rare
European (Non-Finnish)0.000180.00018rare
South Asian0.0000980.000098rare
Other0.000330.00033rare

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Has an E3 ubiquitin ligase activity. Ubiquitinates DTNBP1 (dysbindin) and promotes its degradation. May ubiquitinate BBS2. May play a significant role in mediating the biological activity of the HIV-1 Tat protein in vivo. Binds specifically to the activation domain of HIV-1 Tat and can also interact with the HIV-2 and EIAV Tat proteins in vivo. {ECO:0000269|PubMed:19349376, ECO:0000269|PubMed:22500027}.;
Disease
DISEASE: Limb-girdle muscular dystrophy 2H (LGMD2H) [MIM:254110]: An autosomal recessive degenerative myopathy characterized by pelvic girdle, shoulder girdle and quadriceps muscle weakness. Clinical phenotype and severity are highly variable. Disease progression is slow and most patients remain ambulatory into the sixth decade of life. {ECO:0000269|PubMed:11822024, ECO:0000269|PubMed:17994549}. Note=The disease is caused by mutations affecting the gene represented in this entry.; DISEASE: Bardet-Biedl syndrome 11 (BBS11) [MIM:615988]: A syndrome characterized by usually severe pigmentary retinopathy, early- onset obesity, polydactyly, hypogenitalism, renal malformation and mental retardation. Secondary features include diabetes mellitus, hypertension and congenital heart disease. Bardet-Biedl syndrome inheritance is autosomal recessive, but three mutated alleles (two at one locus, and a third at a second locus) may be required for clinical manifestation of some forms of the disease. {ECO:0000269|PubMed:16606853}. Note=The disease is caused by mutations affecting the gene represented in this entry. It has been suggested that TRIM32 might be the E3 ubiquitin ligase for BBS2, a component of the BBSome complex involved in ciliogenesis, that is ubiquitinated and degraded by the proteasome (PubMed:22500027). {ECO:0000269|PubMed:22500027}.;

Recessive Scores

pRec
0.110

Intolerance Scores

LoFtool
0.211
RVIS EVS
-0.6
RVIS percentile EVS
18.06

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Indispensability pred.
E
Indispensability score
0.983

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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