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    zranb1b zinc finger, RAN-binding domain containing 1b [ Danio rerio (zebrafish) ]

    Gene ID: 777720, updated on 9-Dec-2024

    Summary

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    Official Symbol
    zranb1bprovided by ZNC
    Official Full Name
    zinc finger, RAN-binding domain containing 1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-061110-94
    See related
    Ensembl:ENSDARG00000063190 AllianceGenome:ZFIN:ZDB-GENE-061110-94
    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
    zranb1; zgc:154177
    Summary
    Predicted to enable K63-linked polyubiquitin modification-dependent protein binding activity and cysteine-type deubiquitinase activity. Acts upstream of or within brain development and central nervous system morphogenesis. Predicted to be active in cytoplasm and nucleus. Orthologous to human ZRANB1 (zinc finger RANBP2-type containing 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See zranb1b in Genome Data Viewer
    Location:
    chromosome: 17
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (8949196..8985240, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (8792023..8828508, complement)

    Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137488035 Neighboring gene proteasome 26S subunit, ATPase 1a Neighboring gene A kinase (PRKA) anchor protein 6 Neighboring gene neuronal PAS domain protein 3 Neighboring gene uncharacterized LOC108179743

    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. Identification of inter-organ vascular network: vessels bridging between organs. Omae M, et al. PLoS One, 2013. PMID 23799039, Free PMC Article
    2. Zebrafish Nk-lysins: First insights about their cellular and functional diversification. Pereiro P, et al. Dev Comp Immunol, 2015 Jul. PMID 25813149
    3. Large-scale discovery of novel genetic causes of developmental disorders. Deciphering Developmental Disorders Study. Nature, 2015 Mar 12. PMID 25533962, Free PMC Article
    4. New classes of mind bomb-interacting proteins identified from yeast two-hybrid screens. Tseng LC, et al. PLoS One, 2014. PMID 24714733, Free PMC Article
    5. Genome-wide loss-of-function analysis of deubiquitylating enzymes for zebrafish development. Tse WK, et al. BMC Genomics, 2009 Dec 30. PMID 20040115, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cysteine-type deubiquitinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cysteine-type deubiquitinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables cysteine-type deubiquitinase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables cysteine-type peptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables peptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within Wnt signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within brain development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cell migration ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within central nervous system morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cytoskeleton organization ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of Wnt signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of Wnt signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein K29-linked deubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein K33-linked deubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein K63-linked deubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein deubiquitination involved in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of cell morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    ubiquitin thioesterase zranb1-B
    Names
    Ubiquitin thioesterase zranb1
    Zinc finger Ran-binding domain-containing protein 1
    trabid c
    zinc finger Ran-binding domain-containing protein 1-B
    zinc finger, RAN-binding domain containing 1
    NP_001071236.1
    XP_005158652.1

    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_001077768.1 → NP_001071236.1  ubiquitin thioesterase zranb1-B

      See identical proteins and their annotated locations for NP_001071236.1

      Status: PROVISIONAL

      Source sequence(s)
      BC125972
      UniProtKB/Swiss-Prot
      A0JMQ9
      Related
      ENSDARP00000086546.4, ENSDART00000092113.5
      Conserved Domains (3) summary
      smart00547
      Location:156 → 178
      ZnF_RBZ; Zinc finger domain
      sd00029
      Location:86 → 105
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam02338
      Location:446 → 594
      OTU; OTU-like cysteine protease

    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_007128.7 Reference GRCz11 Primary Assembly

      Range
      8949196..8985240 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005158595.5 → XP_005158652.1  ubiquitin thioesterase zranb1-B isoform X1

      See identical proteins and their annotated locations for XP_005158652.1

      UniProtKB/Swiss-Prot
      A0JMQ9
      Conserved Domains (3) summary
      smart00547
      Location:156 → 178
      ZnF_RBZ; Zinc finger domain
      sd00029
      Location:86 → 105
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam02338
      Location:446 → 594
      OTU; OTU-like cysteine protease

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394977.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      215472..245111 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A0JMQ9.1 GenPept UniProtKB/Swiss-Prot:A0JMQ9

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