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Trim46 tripartite motif-containing 46 [ Mus musculus (house mouse) ]

Gene ID: 360213, updated on 27-Nov-2024

Summary

Official Symbol
Trim46provided by MGI
Official Full Name
tripartite motif-containing 46provided by MGI
Primary source
MGI:MGI:2673000
See related
Ensembl:ENSMUSG00000042766 AllianceGenome:MGI:2673000
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
TRIFIC
Summary
Predicted to enable microtubule binding activity. Involved in regulation of protein localization. Acts upstream of or within several processes, including anterograde synaptic vesicle transport; generation of neurons; and protein localization to axon. Located in axon initial segment and proximal neuron projection. Orthologous to human TRIM46 (tripartite motif containing 46). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in CNS E18 (RPKM 29.1), whole brain E14.5 (RPKM 28.7) and 18 other tissues See more
Orthologs
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Genomic context

See Trim46 in Genome Data Viewer
Location:
3 F1; 3 39.02 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (89141476..89153655, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (89234169..89246358, complement)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E11198 Neighboring gene microRNA 92b Neighboring gene mucin 1, transmembrane Neighboring gene keratinocyte associated protein 2 Neighboring gene STARR-positive B cell enhancer ABC_E4552 Neighboring gene dolichyl-phosphate mannosyltransferase polypeptide 3 Neighboring gene solute carrier family 50 (sugar transporter), member 1

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 (3) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC90834

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables microtubule binding ISO
Inferred from Sequence Orthology
more info
PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in anterograde synaptic vesicle transport IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within anterograde synaptic vesicle transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in axonogenesis IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within axonogenesis IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within axonogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in microtubule bundle formation IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within microtubule bundle formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within microtubule bundle formation ISO
Inferred from Sequence Orthology
more info
PubMed 
acts_upstream_of_or_within microtubule cytoskeleton organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of axon extension IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of axon extension ISO
Inferred from Sequence Orthology
more info
 
involved_in neuron migration IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within neuron migration IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within neuron migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of anterograde dense core granule transport IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of anterograde dense core granule transport ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within protein localization to axon IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of protein localization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of protein localization ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in axon cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in axon initial segment IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in main axon IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in main axon IDA
Inferred from Direct Assay
more info
PubMed 
located_in main axon ISO
Inferred from Sequence Orthology
more info
 
located_in microtubule cytoskeleton ISO
Inferred from Sequence Orthology
more info
PubMed 
located_in proximal neuron projection IMP
Inferred from Mutant Phenotype
more info
PubMed 

General protein information

Preferred Names
tripartite motif-containing protein 46
Names
geneY
tripartite, fibronectin type III and C-terminal SPRY motif-containing

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_001039466.1NP_001034555.1  tripartite motif-containing protein 46 isoform 3

    See identical proteins and their annotated locations for NP_001034555.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' and 3' UTRs and has multiple differences in the coding region compared to variant 2. These differences result in translation initiation at an alternate start codon, and a frameshift in the 3' coding region, compared to variant 2. The encoded isoform (3) has distinct N- and C-termini and is shorter compared to isoform 2.
    Source sequence(s)
    AC104632, AK132368, BC082299
    Consensus CDS
    CCDS17498.1
    UniProtKB/TrEMBL
    Q3TC52
    Related
    ENSMUSP00000088442.7, ENSMUST00000090924.13
    Conserved Domains (4) summary
    cd00063
    Location:431512
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00643
    Location:209250
    zf-B_box; B-box zinc finger
    pfam13923
    Location:2052
    zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)
    cl23765
    Location:257382
    iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits
  2. NM_183037.2NP_898858.1  tripartite motif-containing protein 46 isoform 2

    See identical proteins and their annotated locations for NP_898858.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) encodes the longer isoform (2).
    Source sequence(s)
    AY251388, BC082299
    Consensus CDS
    CCDS17497.1
    UniProtKB/Swiss-Prot
    Q60717, Q6P1I9, Q7TNM2
    Related
    ENSMUSP00000036053.9, ENSMUST00000041022.15
    Conserved Domains (5) summary
    cd00063
    Location:444525
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00162
    Location:3363
    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 ...
    pfam00643
    Location:222263
    zf-B_box; B-box zinc finger
    cd12895
    Location:532741
    SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)
    cl23765
    Location:270395
    iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

RNA

  1. NR_121683.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate 5' terminal exon and an alternate internal exon compared to variant 2. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC132327, BC065049, BC082299, CA315205

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_000069.7 Reference GRCm39 C57BL/6J

    Range
    89141476..89153655 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030252658.1XP_030108518.1  tripartite motif-containing protein 46 isoform X7

    Conserved Domains (6) summary
    smart00502
    Location:247372
    BBC; B-Box C-terminal domain
    cd00063
    Location:421502
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    TIGR00599
    Location:173
    rad18; DNA repair protein rad18
    cd16757
    Location:438
    RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19786
    Location:200245
    Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cl00034
    Location:146197
    Bbox_SF; B-box-type zinc finger superfamily
  2. XM_036163144.1XP_036019037.1  tripartite motif-containing protein 46 isoform X6

    Conserved Domains (5) summary
    smart00502
    Location:45170
    BBC; B-Box C-terminal domain
    cd00063
    Location:219300
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd12895
    Location:307516
    SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)
    cd19786
    Location:143
    Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    pfam18568
    Location:148197
    COS; TRIM C-terminal subgroup One Signature domain
  3. XM_006501616.2XP_006501679.2  tripartite motif-containing protein 46 isoform X4

    Conserved Domains (6) summary
    smart00502
    Location:270395
    BBC; B-Box C-terminal domain
    cd00063
    Location:444525
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    TIGR00599
    Location:2296
    rad18; DNA repair protein rad18
    cd16757
    Location:2761
    RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19786
    Location:223268
    Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19849
    Location:169220
    Bbox1_TRIM46_C-I; B-box-type 1 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
  4. XM_006501613.3XP_006501676.1  tripartite motif-containing protein 46 isoform X1

    Conserved Domains (7) summary
    smart00502
    Location:296421
    BBC; B-Box C-terminal domain
    cd00063
    Location:470551
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    TIGR00599
    Location:48122
    rad18; DNA repair protein rad18
    cd12895
    Location:558767
    SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)
    cd16757
    Location:5387
    RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19786
    Location:249294
    Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19849
    Location:195246
    Bbox1_TRIM46_C-I; B-box-type 1 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
  5. XM_030252657.2XP_030108517.1  tripartite motif-containing protein 46 isoform X5

    Conserved Domains (6) summary
    smart00502
    Location:268393
    BBC; B-Box C-terminal domain
    cd00063
    Location:442523
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    TIGR00599
    Location:1294
    rad18; DNA repair protein rad18
    cd16757
    Location:2559
    RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19786
    Location:221266
    Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cl00034
    Location:167218
    Bbox_SF; B-box-type zinc finger superfamily
  6. XM_006501614.5XP_006501677.1  tripartite motif-containing protein 46 isoform X2

    Conserved Domains (7) summary
    smart00502
    Location:268393
    BBC; B-Box C-terminal domain
    cd00063
    Location:442523
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    TIGR00599
    Location:1294
    rad18; DNA repair protein rad18
    cd12895
    Location:530739
    SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)
    cd16757
    Location:2559
    RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19786
    Location:221266
    Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19849
    Location:167218
    Bbox1_TRIM46_C-I; B-box-type 1 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
  7. XM_006501615.4XP_006501678.1  tripartite motif-containing protein 46 isoform X3

    See identical proteins and their annotated locations for XP_006501678.1

    UniProtKB/TrEMBL
    D3YXA6
    Conserved Domains (7) summary
    smart00502
    Location:247372
    BBC; B-Box C-terminal domain
    cd00063
    Location:421502
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    TIGR00599
    Location:173
    rad18; DNA repair protein rad18
    cd12895
    Location:509718
    SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)
    cd16757
    Location:438
    RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19786
    Location:200245
    Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19849
    Location:146197
    Bbox1_TRIM46_C-I; B-box-type 1 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
  8. XM_011240152.4XP_011238454.1  tripartite motif-containing protein 46 isoform X3

    See identical proteins and their annotated locations for XP_011238454.1

    UniProtKB/TrEMBL
    D3YXA6
    Related
    ENSMUSP00000103088.2, ENSMUST00000107464.8
    Conserved Domains (7) summary
    smart00502
    Location:247372
    BBC; B-Box C-terminal domain
    cd00063
    Location:421502
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    TIGR00599
    Location:173
    rad18; DNA repair protein rad18
    cd12895
    Location:509718
    SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)
    cd16757
    Location:438
    RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19786
    Location:200245
    Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
    cd19849
    Location:146197
    Bbox1_TRIM46_C-I; B-box-type 1 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

RNA

  1. XR_003954344.2 RNA Sequence

  2. XR_001783704.3 RNA Sequence

  3. XR_003954345.2 RNA Sequence

  4. XR_003954347.1 RNA Sequence

  5. XR_001783703.3 RNA Sequence

  6. XR_003954343.2 RNA Sequence

  7. XR_003954346.2 RNA Sequence