Trim46 tripartite motif-containing 46 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Trim46provided by RGD
Full Name: tripartite motif-containing 46provided by RGD
Primary source: RGD:1305993
See related: EnsemblRapid:ENSRNOG00000055433 AllianceGenome:RGD:1305993
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable zinc ion binding activity. Involved in negative regulation of axon extension; positive regulation of anterograde dense core granule transport; and regulation of protein localization. Located in main axon. Orthologous to human TRIM46 (tripartite motif containing 46). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 57.5), Lung (RPKM 5.0) and 2 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (176939253..176952285, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (174641494..174654237, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (188548608..188561617, complement)

Chromosome 2 - NC_086020.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

In the present study we developed a novel correlative light and electron microscopy approach to study the axon initial segment microtubules during neuron development and identified an essential role for TRIM46 in microtubule fasciculation
Title: TRIM46 Organizes Microtubule Fasciculation in the Axon Initial Segment.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

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

General protein information

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Preferred Names: tripartite motif-containing protein 46

Names: tripartite motif protein 46; tripartite motif-containing protein 46-like

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_001395105.1 → NP_001382034.1 tripartite motif-containing protein 46

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

A0A096MKD9, A0A0G2JXN2

Related

ENSRNOP00000075661.2, ENSRNOT00000077074.3

Conserved Domains (8) 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

cd12895
Location:532 → 741

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

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

pfam18568
Location:373 → 422

COS; TRIM C-terminal subgroup One Signature domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086020.1 Reference GRCr8

Range

176939253..176952285 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063281863.1 → XP_063137933.1 tripartite motif-containing protein 46 isoform X5
XM_017590890.3 → XP_017446379.1 tripartite motif-containing protein 46 isoform X3

Related

ENSRNOP00000070340.3, ENSRNOT00000089781.3
XM_008761172.4 → XP_008759394.1 tripartite motif-containing protein 46 isoform X2

Related

ENSRNOP00000108450.1, ENSRNOT00000136887.1

Conserved Domains (5) summary

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 ...

cd00162
Location:10 → 40

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:199 → 240

zf-B_box; B-box zinc finger

cd12895
Location:509 → 718

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

cl23765
Location:247 → 372

iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits
XM_039102335.2 → XP_038958263.1 tripartite motif-containing protein 46 isoform X5

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_039102334.2 → XP_038958262.1 tripartite motif-containing protein 46 isoform X5

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_008761173.4 → XP_008759395.1 tripartite motif-containing protein 46 isoform X4

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 ...

cd00162
Location:20 → 50

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:209 → 250

zf-B_box; B-box zinc finger

cl23765
Location:257 → 382

iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits
XM_008761171.4 → XP_008759393.1 tripartite motif-containing protein 46 isoform X1

UniProtKB/TrEMBL

A0A5H1ZRV2

Related

ENSRNOP00000075503.3, ENSRNOT00000088822.3

Conserved Domains (5) 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 ...

cd00162
Location:20 → 50

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:209 → 250

zf-B_box; B-box zinc finger

cd12895
Location:519 → 728

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

cl23765
Location:257 → 382

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

RNA

XR_010063609.1 RNA Sequence
XR_010063610.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001107691.1: Suppressed sequence

Description

NM_001107691.1: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.