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rnf168 ring finger protein 168 [ Danio rerio (zebrafish) ]

Gene ID: 334081, updated on 2-Nov-2024

Summary

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Official Symbol
rnf168provided by ZNC
Official Full Name
ring finger protein 168provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-6013
See related
Ensembl:ENSDARG00000112483 AllianceGenome:ZFIN:ZDB-GENE-030131-6013
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
fi30d02; zgc:64185; wu:fi30d02
Summary
Predicted to enable several functions, including K63-linked polyubiquitin modification-dependent protein binding activity; nucleosome binding activity; and ubiquitin binding activity. Predicted to be involved in several processes, including DNA metabolic process; DNA repair-dependent chromatin remodeling; and regulation of nucleobase-containing compound metabolic process. Predicted to act upstream of or within DNA repair and chromatin organization. Predicted to be part of ubiquitin ligase complex. Predicted to be active in nucleus and site of double-strand break. Human ortholog(s) of this gene implicated in RIDDLE syndrome. Orthologous to human RNF168 (ring finger protein 168). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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See rnf168 in Genome Data Viewer
Location:
chromosome: 15
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 15 NC_007126.7 (4104624..4123727, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 15 NC_007126.6 (3902595..3921694, complement)

Chromosome 15 - NC_007126.7Genomic Context describing neighboring genes Neighboring gene P2Y purinoceptor 14 Neighboring gene transmembrane 4 L6 family member 19 Neighboring gene anoctamin 7 Neighboring gene endothelin converting enzyme 2b Neighboring gene uncharacterized LOC103908795

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 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. Rapid progression through the cell cycle ensures efficient migration of primordial germ cells - The role of Hsp90. Pfeiffer J, et al. Dev Biol, 2018 Apr 15. PMID 29477339
  2. Sequential, Divergent, and Cooperative Requirements of Foxl2a and Foxl2b in Ovary Development and Maintenance of Zebrafish. Yang YJ, et al. Genetics, 2017 Apr. PMID 28193729, Free PMC Article
  3. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
  4. 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
  5. 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

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables K63-linked polyubiquitin modification-dependent protein binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables chromatin binding IEA
Inferred from Electronic Annotation
more info
  
enables chromatin binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables histone binding IEA
Inferred from Electronic Annotation
more info
  
enables histone binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleosome binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin binding IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables ubiquitin-protein transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin-protein transferase activity IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin-protein transferase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within DNA damage response IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in DNA repair-dependent chromatin remodeling ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
  
involved_in double-strand break repair IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within double-strand break repair IEA
Inferred from Electronic Annotation
more info
  
involved_in double-strand break repair IEA
Inferred from Electronic Annotation
more info
  
involved_in double-strand break repair ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in isotype switching ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of transcription elongation by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of DNA repair ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K63-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within protein ubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in protein ubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in response to ionizing radiation IEA
Inferred from Electronic Annotation
more info
  
involved_in response to ionizing radiation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in ubiquitin-dependent protein catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in site of double-strand break IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in site of double-strand break ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of ubiquitin ligase complex IEA
Inferred from Electronic Annotation
more info
  
part_of ubiquitin ligase complex ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
E3 ubiquitin-protein ligase rnf168
Names
E3 ubiquitin-protein ligase RNF168
RING-type E3 ubiquitin transferase rnf168
NP_956149.1
XP_021337022.1

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_199855.1 → NP_956149.1  E3 ubiquitin-protein ligase rnf168

    See identical proteins and their annotated locations for NP_956149.1

    Status: PROVISIONAL

    Source sequence(s)
    BC053301
    UniProtKB/Swiss-Prot
    Q7T308
    Related
    ENSDARP00000154968.1, ENSDART00000185583.1
    Conserved Domains (1) summary
    cd00162
    Location:26 → 68
    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_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_007126.7 Reference GRCz11 Primary Assembly

    Range
    4104624..4123727 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021481347.2 → XP_021337022.1  E3 ubiquitin-protein ligase rnf168 isoform X1

    UniProtKB/TrEMBL
    A0A8M9Q066
    Conserved Domains (1) summary
    cd16550
    Location:26 → 67
    RING-HC_RNF168; RING finger, HC subclass, found in RING finger protein 168 (RNF168) and similar proteins
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q7T308.1 GenPept UniProtKB/Swiss-Prot:Q7T308

Gene LinkOut

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