Trim54 tripartite motif-containing 54 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Trim54provided by RGD
Official Full Name: tripartite motif-containing 54provided by RGD
Primary source: RGD:1306453
See related: Ensembl:ENSRNOG00000006146 AllianceGenome:RGD:1306453
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Rnf30
Summary: Predicted to enable microtubule binding activity and ubiquitin protein ligase activity. Predicted to be involved in protein ubiquitination. Predicted to act upstream of or within negative regulation of microtubule depolymerization. Predicted to be located in Z disc and microtubule. Predicted to be part of microtubule associated complex. Predicted to be active in cytoplasm. Orthologous to human TRIM54 (tripartite motif containing 54). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 771.4) and Heart (RPKM 513.7) See more
Orthologs: human mouse all
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Genomic context

Location:: 6q14

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (30959306..30978475, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (25239340..25258511, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (26603364..26623950, complement)

Chromosome 6 - NC_086024.1 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: 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?

TRIM54 alleviates inflammation and apoptosis by stabilizing YOD1 in rat tendon-derived stem cells.
Title: TRIM54 alleviates inflammation and apoptosis by stabilizing YOD1 in rat tendon-derived stem cells.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables microtubule binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of microtubule depolymerization	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in Z disc	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in microtubule	IEA Inferred from Electronic Annotation more info
part_of microtubule associated complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: tripartite motif-containing protein 54

Names: ring finger protein 30

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_001013217.1 → NP_001013235.1 tripartite motif-containing protein 54

See identical proteins and their annotated locations for NP_001013235.1

Status: PROVISIONAL

Source sequence(s)

BC083706

UniProtKB/Swiss-Prot

Q5XIH6

UniProtKB/TrEMBL

A0A8I5Y850, A6HA76

Related

ENSRNOP00000008113.5, ENSRNOT00000008113.7

Conserved Domains (3) summary

cd00162
Location:26 → 85

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:125 → 163

zf-B_box; B-box zinc finger

cl23765
Location:170 → 273

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