Rnf20 ring finger protein 20 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rnf20provided by RGD
Official Full Name: ring finger protein 20provided by RGD
Primary source: RGD:1311936
See related: EnsemblRapid:ENSRNOG00000006087 AllianceGenome:RGD:1311936
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
Summary: Predicted to enable several functions, including histone H2B C-terminal K residue ubiquitin ligase activity; p53 binding activity; and ubiquitin protein ligase binding activity. Predicted to contribute to ubiquitin-protein transferase activity. Predicted to be involved in several processes, including positive regulation of transcription by RNA polymerase II; protein polyubiquitination; and ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within chromatin remodeling. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of HULC complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in breast cancer. Orthologous to human RNF20 (ring finger protein 20). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 100.1), Spleen (RPKM 95.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q22

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (68771507..68797240)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (63976063..64001754)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (64892996..64920397)

Chromosome 5 - NC_086023.1 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?

RNF20-drive H2B monoubiquitination, which facilitates phosphorylated mGluR5 transcription in the dorsal horn in the development of neuropathic allodynia.
Title: Spinal RNF20-Mediated Histone H2B Monoubiquitylation Regulates mGluR5 Transcription for Neuropathic Allodynia.

Submit: New GeneRIF Correction

General gene information

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Markers

MARC_15327-15328:1017321397:1 (e-PCR)
- UniSTS:267813

MARC_15327-15328:1032188554:1 (e-PCR)
- UniSTS:267813

BF397033 (e-PCR)
- UniSTS:246094

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables histone H2B C-terminal K residue ubiquitin ligase activity	ISO Inferred from Sequence Orthology more info
enables histone binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables mRNA 3'-UTR binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables p53 binding	ISO Inferred from Sequence Orthology more info
enables transcription coactivator activity	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 binding	ISO Inferred from Sequence Orthology more info
contributes_to ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in negative regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in protein polyubiquitination	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
NOT involved_in regulation of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of HULC complex	IBA Inferred from Biological aspect of Ancestor more info
part_of HULC complex	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of ubiquitin ligase complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase BRE1A

Names: ring finger protein 20, E3 ubiquitin protein ligase

NP_001101399.2

EC 2.3.2.27

XP_006238216.1

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_001107929.2 → NP_001101399.2 E3 ubiquitin-protein ligase BRE1A

See identical proteins and their annotated locations for NP_001101399.2

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000005

UniProtKB/TrEMBL

A0A8I6AJL7, D3ZYQ9

Related

ENSRNOP00000094446.1, ENSRNOT00000096159.2

Conserved Domains (1) summary

cd00162
Location:919 → 962

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 ...

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_086023.1 Reference GRCr8

Range

68771507..68797240

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006238154.5 → XP_006238216.1 E3 ubiquitin-protein ligase BRE1A isoform X1

See identical proteins and their annotated locations for XP_006238216.1

UniProtKB/TrEMBL

A0A8I6AJL7, D3ZYQ9

Related

ENSRNOP00000056614.2, ENSRNOT00000059869.5

Conserved Domains (1) summary

cd00162
Location:919 → 962

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 ...