Rnf5 ring finger protein 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rnf5provided by RGD
Official Full Name: ring finger protein 5provided by RGD
Primary source: RGD:1588458
See related: EnsemblRapid:ENSRNOG00000000438 AllianceGenome:RGD:1588458
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 identical protein binding activity; ubiquitin protein ligase activity; and ubiquitin-like protein conjugating enzyme binding activity. Predicted to be involved in protein polyubiquitination and proteolysis involved in protein catabolic process. Predicted to act upstream of or within several processes, including negative regulation of autophagy; protein destabilization; and regulation of autophagosome assembly. Predicted to be located in endoplasmic reticulum and membrane. Orthologous to human RNF5 (ring finger protein 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 216.4), Adrenal (RPKM 112.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20p12

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (4150032..4152593)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (4145539..4147985)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (4366244..4368690, complement)

Chromosome 20 - NC_086038.1 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 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?

Submit: New GeneRIF Correction

General gene information

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Markers

AI453961 (e-PCR)
- UniSTS:226220

AU026365 (e-PCR)
- UniSTS:114352

RH133750 (e-PCR)
- UniSTS:217033

RH137557 (e-PCR)
- UniSTS:217033

BE119939 (e-PCR)
- UniSTS:249306

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin protein ligase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin-like protein conjugating enzyme binding	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin-like protein conjugating enzyme binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in ERAD pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in ERAD pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of autophagy	ISO Inferred from Sequence Orthology more info
involved_in protein K48-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein K63-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein destabilization	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein ubiquitination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of autophagosome assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to bacterium	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in ubiquitin-dependent protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in mitochondrial membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase RNF5

Names: RING-type E3 ubiquitin transferase RNF5; ing finger protein 5 pseudogene; ring finger protein 5, E3 ubiquitin protein ligase

NP_001102495.1

EC 2.3.2.27

XP_063135456.1

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_001109025.2 → NP_001102495.1 E3 ubiquitin-protein ligase RNF5

See identical proteins and their annotated locations for NP_001102495.1

Status: VALIDATED

Source sequence(s)

BC088341, DY573537

UniProtKB/Swiss-Prot

Q5M807

UniProtKB/TrEMBL

A6KTG9

Related

ENSRNOP00000070056.3, ENSRNOT00000088244.3

Conserved Domains (2) summary

PLN03208
Location:25 → 117

PLN03208; E3 ubiquitin-protein ligase RMA2; Provisional

cd16743
Location:25 → 70

RING-HC_RNF5; RING finger, HC subclass, found in RING finger protein 5 (RNF5) and similar proteins

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_086038.1 Reference GRCr8

Range

4150032..4152593

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063279386.1 → XP_063135456.1 E3 ubiquitin-protein ligase RNF5 isoform X1

UniProtKB/TrEMBL

A0A0G2JWX8

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NG_004074.2: Suppressed sequence

Description

NG_004074.2: This RefSeq was permanently suppressed because there is evidence from cDNAs that the locus is transcribed and encodes a protein similar to that identified in other species. NG_004074.2 erroneously represented the str
NG_004074.2: Suppressed sequence

Description

NG_004074.2: This RefSeq was permanently suppressed because there is evidence from cDNAs that the locus is transcribed and encodes a protein similar to that identified in other species. NG_004074.2 erroneously represented the str