Trim3 tripartite motif-containing 3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Trim3provided by MGI
Official Full Name: tripartite motif-containing 3provided by MGI
Primary source: MGI:MGI:1860040
See related: Ensembl:ENSMUSG00000036989 AllianceGenome:MGI:1860040
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: HAC1; BERP1; Rnf22
Summary: Enables ubiquitin protein ligase activity. Involved in protein ubiquitination. Located in cytoplasm. Is expressed in several structures, including adrenal gland; cardiovascular system; genitourinary system; gut gland; and nervous system. Orthologous to human TRIM3 (tripartite motif containing 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in lung adult (RPKM 38.8), cerebellum adult (RPKM 38.4) and 24 other tissues See more
Orthologs: human all
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Genomic context

Location:: 7 E3; 7 55.91 cM

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	7	NC_000073.7 (105253670..105282805, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	7	NC_000073.6 (105604463..105633574, complement)

Chromosome 7 - NC_000073.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TRIM3 inhibits colorectal cancer cell migration and lipid droplet formation by promoting FABP4 degradation.
Title: TRIM3 inhibits colorectal cancer cell migration and lipid droplet formation by promoting FABP4 degradation.
TRIM3 attenuates apoptosis in Parkinson's disease via activating PI3K/AKT signal pathway.
Title: TRIM3 attenuates apoptosis in Parkinson's disease via activating PI3K/AKT signal pathway.
Ubiquitination of TLR3 by TRIM3 signals its ESCRT-mediated trafficking to the endolysosomes for innate antiviral response.
Title: Ubiquitination of TLR3 by TRIM3 signals its ESCRT-mediated trafficking to the endolysosomes for innate antiviral response.
Temporal control of gamma-actin levels by TRIM3 is required to regulate the timing of hippocampal plasticity.
Title: Ubiquitin ligase TRIM3 controls hippocampal plasticity and learning by regulating synaptic γ-actin levels.
TRIM3, also known as BERP, interacts with KIF21B via its RBCC domain.
Title: TRIM3 regulates the motility of the kinesin motor protein KIF21B.
the RING domain is required for TRIM3-induced growth suppression.
Title: The ability of TRIM3 to induce growth arrest depends on RING-dependent E3 ligase activity.
Data indicate TRIM3 and p21 interact in cells.
Title: TRIM3, a tumor suppressor linked to regulation of p21(Waf1/Cip1.).
brain-expressed RING finger protein (BERP) is a gene whose expression is up-regulated in a p53-dependent manner
Title: Identification of BERP (brain-expressed RING finger protein) as a p53 target gene that modulates seizure susceptibility through interacting with GABA(A) receptors.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Targeted (5) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
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 ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-protein transferase activity	IDA Inferred from Direct Assay more info	PubMed
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in neural precursor cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of toll-like receptor 3 signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of toll-like receptor 3 signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein K63-linked ubiquitination	IEA Inferred from Electronic Annotation more info
involved_in protein K63-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein polyubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info
involved_in protein ubiquitination	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation protein catabolic process at postsynapse	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
is_active_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in dendrite	IEA Inferred from Electronic Annotation more info
located_in early endosome	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in postsynapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: tripartite motif-containing protein 3

Names: RING finger protein HAC1; ring finger protein 22; tripartite motif protein 3

NP_001272799.1

EC 2.3.2.27

NP_001272800.1

EC 2.3.2.27

NP_001272802.1

EC 2.3.2.27

NP_001347354.1

EC 2.3.2.27

NP_061368.1

EC 2.3.2.27

XP_006508101.1

EC 2.3.2.27

XP_006508102.1

EC 2.3.2.27

XP_006508103.1

EC 2.3.2.27

XP_006508104.1

EC 2.3.2.27

XP_030098666.1

EC 2.3.2.27

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)

NM_001285870.1 → NP_001272799.1 tripartite motif-containing protein 3 isoform a

See identical proteins and their annotated locations for NP_001272799.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 5. The resulting isoform (a) has the same N- and C-termini but is shorter compared to isoform c. Variants 1, 2, and 3 all encode the same isoform (a).

Source sequence(s)

AK019165, BE947448, CD348171

Consensus CDS

CCDS21655.1

UniProtKB/Swiss-Prot

Q3UMU5, Q9R1R2

Related

ENSMUSP00000102401.2, ENSMUST00000106789.8

Conserved Domains (7) summary

smart00502
Location:158 → 284

BBC; B-Box C-terminal domain

smart00336
Location:110 → 151

BBOX; B-Box-type zinc finger

smart00557
Location:322 → 419

IG_FLMN; Filamin-type immunoglobulin domains

COG3391
Location:486 → 735

YncE; DNA-binding beta-propeller fold protein YncE [General function prediction only]

cd00162
Location:22 → 65

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

cd14960
Location:471 → 744

NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins

pfam00630
Location:322 → 415

Filamin; Filamin/ABP280 repeat
NM_001285871.1 → NP_001272800.1 tripartite motif-containing protein 3 isoform a

See identical proteins and their annotated locations for NP_001272800.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) differs in the 5' UTR and uses an alternate in-frame splice junction compared to variant 5. The resulting isoform (a) has the same N- and C-termini but is shorter compared to isoform c. Variants 1, 2, and 3 all encode the same isoform (a).

Source sequence(s)

AC125227, AK019165, BE947448, CD348171

Consensus CDS

CCDS21655.1

UniProtKB/Swiss-Prot

Q3UMU5, Q9R1R2

Related

ENSMUSP00000114822.3, ENSMUST00000147044.4

Conserved Domains (7) summary

smart00502
Location:158 → 284

BBC; B-Box C-terminal domain

smart00336
Location:110 → 151

BBOX; B-Box-type zinc finger

smart00557
Location:322 → 419

IG_FLMN; Filamin-type immunoglobulin domains

COG3391
Location:486 → 735

YncE; DNA-binding beta-propeller fold protein YncE [General function prediction only]

cd00162
Location:22 → 65

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

cd14960
Location:471 → 744

NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins

pfam00630
Location:322 → 415

Filamin; Filamin/ABP280 repeat
NM_001285873.1 → NP_001272802.1 tripartite motif-containing protein 3 isoform b

See identical proteins and their annotated locations for NP_001272802.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in the 3' UTR and coding region and uses an alternate in-frame splice junction compared to variant 5. The resulting isoform (b) has a shorter and distinct C-terminus and lacks an alternate internal segment compared to isoform c.

Source sequence(s)

AC125227, AK019165, CD348171

Consensus CDS

CCDS72012.1

UniProtKB/TrEMBL

Q3TDT0

Related

ENSMUSP00000102403.2, ENSMUST00000106791.8

Conserved Domains (8) summary

smart00502
Location:158 → 284

BBC; B-Box C-terminal domain

smart00336
Location:110 → 151

BBOX; B-Box-type zinc finger

smart00557
Location:322 → 419

IG_FLMN; Filamin-type immunoglobulin domains

COG3391
Location:486 → 695

YncE; DNA-binding beta-propeller fold protein YncE [General function prediction only]

cd00162
Location:22 → 65

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

cd14960
Location:471 → 695

NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins

pfam00630
Location:322 → 415

Filamin; Filamin/ABP280 repeat

sd00039
Location:537 → 573

7WD40; WD40 repeat [structural motif]
NM_001360425.1 → NP_001347354.1 tripartite motif-containing protein 3 isoform c

Status: VALIDATED

Description

Transcript Variant: This variant (5) encodes the longest isoform (c).

Source sequence(s)

AC125227

Conserved Domains (5) summary

smart00502
Location:164 → 290

BBC; B-Box C-terminal domain

smart00557
Location:328 → 425

IG_FLMN; Filamin-type immunoglobulin domains

cd14960
Location:477 → 750

NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins

cd16768
Location:19 → 63

RING-HC_TRIM3; RING finger, HC subclass, found in tripartite motif-containing protein 3 (TRIM3)

cl00034
Location:107 → 159

Bbox_SF; B-box-type zinc finger superfamily
NM_018880.3 → NP_061368.1 tripartite motif-containing protein 3 isoform a

See identical proteins and their annotated locations for NP_061368.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate in-frame splice junction compared to variant 5. The resulting isoform (a) has the same N- and C-termini but is shorter compared to isoform c. Variants 1, 2, and 3 all encode the same isoform (a).

Source sequence(s)

AK019165, BE947448, CD348171

Consensus CDS

CCDS21655.1

UniProtKB/Swiss-Prot

Q3UMU5, Q9R1R2

Related

ENSMUSP00000053384.8, ENSMUST00000057525.14

Conserved Domains (7) summary

smart00502
Location:158 → 284

BBC; B-Box C-terminal domain

smart00336
Location:110 → 151

BBOX; B-Box-type zinc finger

smart00557
Location:322 → 419

IG_FLMN; Filamin-type immunoglobulin domains

COG3391
Location:486 → 735

YncE; DNA-binding beta-propeller fold protein YncE [General function prediction only]

cd00162
Location:22 → 65

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

cd14960
Location:471 → 744

NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins

pfam00630
Location:322 → 415

Filamin; Filamin/ABP280 repeat

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

NC_000073.7 Reference GRCm39 C57BL/6J

Range

105253670..105282805 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006508038.5 → XP_006508101.1 tripartite motif-containing protein 3 isoform X1

See identical proteins and their annotated locations for XP_006508101.1

Conserved Domains (5) summary

smart00502
Location:164 → 290

BBC; B-Box C-terminal domain

smart00557
Location:328 → 425

IG_FLMN; Filamin-type immunoglobulin domains

cd14960
Location:477 → 750

NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins

cd16768
Location:19 → 63

RING-HC_TRIM3; RING finger, HC subclass, found in tripartite motif-containing protein 3 (TRIM3)

cl00034
Location:107 → 159

Bbox_SF; B-box-type zinc finger superfamily
XM_006508040.3 → XP_006508103.1 tripartite motif-containing protein 3 isoform X2

See identical proteins and their annotated locations for XP_006508103.1

Conserved Domains (4) summary

smart00502
Location:60 → 186

BBC; B-Box C-terminal domain

smart00557
Location:224 → 321

IG_FLMN; Filamin-type immunoglobulin domains

cd14960
Location:373 → 646

NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins

cl00034
Location:23 → 55

Bbox_SF; B-box-type zinc finger superfamily
XM_030242806.2 → XP_030098666.1 tripartite motif-containing protein 3 isoform X2

Conserved Domains (4) summary

smart00502
Location:60 → 186

BBC; B-Box C-terminal domain

smart00557
Location:224 → 321

IG_FLMN; Filamin-type immunoglobulin domains

cd14960
Location:373 → 646

NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins

cl00034
Location:23 → 55

Bbox_SF; B-box-type zinc finger superfamily
XM_006508041.5 → XP_006508104.1 tripartite motif-containing protein 3 isoform X2

See identical proteins and their annotated locations for XP_006508104.1

Conserved Domains (4) summary

smart00502
Location:60 → 186

BBC; B-Box C-terminal domain

smart00557
Location:224 → 321

IG_FLMN; Filamin-type immunoglobulin domains

cd14960
Location:373 → 646

NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins

cl00034
Location:23 → 55

Bbox_SF; B-box-type zinc finger superfamily
XM_006508039.5 → XP_006508102.1 tripartite motif-containing protein 3 isoform X1

See identical proteins and their annotated locations for XP_006508102.1

Conserved Domains (5) summary

smart00502
Location:164 → 290

BBC; B-Box C-terminal domain

smart00557
Location:328 → 425

IG_FLMN; Filamin-type immunoglobulin domains

cd14960
Location:477 → 750

NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins

cd16768
Location:19 → 63

RING-HC_TRIM3; RING finger, HC subclass, found in tripartite motif-containing protein 3 (TRIM3)

cl00034
Location:107 → 159

Bbox_SF; B-box-type zinc finger superfamily