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

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: human all
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Genomic context

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_000069.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data 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?

TRIM46 Is Required for Microtubule Fasciculation In Vivo But Not Axon Specification or Axon Initial Segment Formation.
Title: TRIM46 Is Required for Microtubule Fasciculation In Vivo But Not Axon Specification or Axon Initial Segment Formation.
Axonal TAU Sorting Requires the C-terminus of TAU but is Independent of ANKG and TRIM46 Enrichment at the AIS.
Title: Axonal TAU Sorting Requires the C-terminus of TAU but is Independent of ANKG and TRIM46 Enrichment at the AIS.
The Spatiotemporal Construction of the Axon Initial Segment via KIF3/KAP3/TRIM46 Transport under MARK2 Signaling.
Title: The Spatiotemporal Construction of the Axon Initial Segment via KIF3/KAP3/TRIM46 Transport under MARK2 Signaling.
TRIM46 defines a unique axonal cytoskeletal compartment for regulating microtubule organization during neuronal development.
Title: TRIM46 Controls Neuronal Polarity and Axon Specification by Driving the Formation of Parallel Microtubule Arrays.

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Variation

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Alleles

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

Endonuclease-mediated (3)

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 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

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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)

NM_001039466.1 → NP_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:431 → 512

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:209 → 250

zf-B_box; B-box zinc finger

pfam13923
Location:20 → 52

zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)

cl23765
Location:257 → 382

iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits
NM_183037.2 → NP_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:444 → 525

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:33 → 63

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:222 → 263

zf-B_box; B-box zinc finger

cd12895
Location:532 → 741

SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)

cl23765
Location:270 → 395

iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

RNA

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

NC_000069.7 Reference GRCm39 C57BL/6J

Range

89141476..89153655 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Conserved Domains (6) summary

smart00502
Location:247 → 372

BBC; B-Box C-terminal domain

cd00063
Location:421 → 502

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:1 → 73

rad18; DNA repair protein rad18

cd16757
Location:4 → 38

RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19786
Location:200 → 245

Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cl00034
Location:146 → 197

Bbox_SF; B-box-type zinc finger superfamily
XM_036163144.1 → XP_036019037.1 tripartite motif-containing protein 46 isoform X6

Conserved Domains (5) summary

smart00502
Location:45 → 170

BBC; B-Box C-terminal domain

cd00063
Location:219 → 300

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:307 → 516

SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)

cd19786
Location:1 → 43

Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

pfam18568
Location:148 → 197

COS; TRIM C-terminal subgroup One Signature domain
XM_006501616.2 → XP_006501679.2 tripartite motif-containing protein 46 isoform X4

Conserved Domains (6) summary

smart00502
Location:270 → 395

BBC; B-Box C-terminal domain

cd00063
Location:444 → 525

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:22 → 96

rad18; DNA repair protein rad18

cd16757
Location:27 → 61

RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19786
Location:223 → 268

Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19849
Location:169 → 220

Bbox1_TRIM46_C-I; B-box-type 1 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
XM_006501613.3 → XP_006501676.1 tripartite motif-containing protein 46 isoform X1

Conserved Domains (7) summary

smart00502
Location:296 → 421

BBC; B-Box C-terminal domain

cd00063
Location:470 → 551

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:48 → 122

rad18; DNA repair protein rad18

cd12895
Location:558 → 767

SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)

cd16757
Location:53 → 87

RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19786
Location:249 → 294

Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19849
Location:195 → 246

Bbox1_TRIM46_C-I; B-box-type 1 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
XM_030252657.2 → XP_030108517.1 tripartite motif-containing protein 46 isoform X5

Conserved Domains (6) summary

smart00502
Location:268 → 393

BBC; B-Box C-terminal domain

cd00063
Location:442 → 523

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:12 → 94

rad18; DNA repair protein rad18

cd16757
Location:25 → 59

RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19786
Location:221 → 266

Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cl00034
Location:167 → 218

Bbox_SF; B-box-type zinc finger superfamily
XM_006501614.5 → XP_006501677.1 tripartite motif-containing protein 46 isoform X2

Conserved Domains (7) summary

smart00502
Location:268 → 393

BBC; B-Box C-terminal domain

cd00063
Location:442 → 523

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:12 → 94

rad18; DNA repair protein rad18

cd12895
Location:530 → 739

SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)

cd16757
Location:25 → 59

RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19786
Location:221 → 266

Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19849
Location:167 → 218

Bbox1_TRIM46_C-I; B-box-type 1 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
XM_006501615.4 → XP_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:247 → 372

BBC; B-Box C-terminal domain

cd00063
Location:421 → 502

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:1 → 73

rad18; DNA repair protein rad18

cd12895
Location:509 → 718

SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)

cd16757
Location:4 → 38

RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19786
Location:200 → 245

Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19849
Location:146 → 197

Bbox1_TRIM46_C-I; B-box-type 1 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins
XM_011240152.4 → XP_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:247 → 372

BBC; B-Box C-terminal domain

cd00063
Location:421 → 502

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:1 → 73

rad18; DNA repair protein rad18

cd12895
Location:509 → 718

SPRY_PRY_TRIM46; PRY/SPRY domain in tripartite motif-containing protein 46 (TRIM46)

cd16757
Location:4 → 38

RING-HC_TRIM46; RING finger, HC subclass, found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19786
Location:200 → 245

Bbox2_TRIM46_C-I; B-box-type 2 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins

cd19849
Location:146 → 197

Bbox1_TRIM46_C-I; B-box-type 1 zinc finger found in tripartite motif-containing protein 46 (TRIM46) and similar proteins