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rnf40 ring finger protein 40 [ Danio rerio (zebrafish) ]

Gene ID: 798088, updated on 4-Jan-2025

Summary

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Official Symbol
rnf40provided by ZNC
Official Full Name
ring finger protein 40provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-6607
See related
Ensembl:ENSDARG00000054201 AllianceGenome:ZFIN:ZDB-GENE-030131-6607
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
bZ1C10.1; wu:fk48a06; zgc:103763; zgc:152796; si:rp71-1c10.1
Summary
Predicted to enable metal ion binding activity and ubiquitin-protein transferase activity. Predicted to be involved in protein ubiquitination. Predicted to act upstream of or within chromatin organization. Predicted to be located in nucleus. Orthologous to human RNF40 (ring finger protein 40). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
human mouse all
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Genomic context

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See rnf40 in Genome Data Viewer
Location:
chromosome: 12
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 12 NC_007123.7 (28910684..28933282)
105 previous assembly GRCz10 (GCF_000002035.5) 12 NC_007123.6 (28795976..28818380)

Chromosome 12 - NC_007123.7Genomic Context describing neighboring genes Neighboring gene chromobox homolog 1b (HP1 beta homolog Drosophila) Neighboring gene phosphorylase kinase, gamma 2 (testis) Neighboring gene cilia and flagella associated protein 119 Neighboring gene si:rp71-1c10.7 Neighboring gene zinc finger protein 646

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • KIAA0661, MGC152796

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin-protein transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
  
involved_in protein ubiquitination IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
E3 ubiquitin-protein ligase BRE1B
Names
bZ1C10.1.2 (novel ring finger protein)
NP_001410764.1
XP_068080760.1

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)

  1. NM_001423835.1 → NP_001410764.1  E3 ubiquitin-protein ligase BRE1B

    Status: VALIDATED

    Source sequence(s)
    AL732488, CT030027
    Related
    ENSDARP00000130936.1, ENSDART00000160939.2

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007123.7 Reference GRCz11 Primary Assembly

    Range
    28910684..28933282
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068224659.1 → XP_068080760.1  E3 ubiquitin-protein ligase BRE1B isoform X1

    Related
    ENSDARP00000070816.4, ENSDART00000076342.5

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394849.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    92..18275
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001005778.2: Suppressed sequence

    Description
    NM_001005778.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases
Research Materials