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    ubr4 ubiquitin protein ligase E3 component n-recognin 4 [ Danio rerio (zebrafish) ]

    Gene ID: 407625, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ubr4provided by ZNC
    Official Full Name
    ubiquitin protein ligase E3 component n-recognin 4provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-090313-341
    See related
    Ensembl:ENSDARG00000009549 AllianceGenome:ZFIN:ZDB-GENE-090313-341
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    si:dkey-7c22.2
    Summary
    Predicted to enable ubiquitin-protein transferase activity. Predicted to be involved in ubiquitin-dependent protein catabolic process. Predicted to be active in centrosome; cytosol; and nucleoplasm. Orthologous to human UBR4 (ubiquitin protein ligase E3 component n-recognin 4). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ubr4 in Genome Data Viewer
    Location:
    chromosome: 23
    Exon count:
    106
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (21278932..21377583)
    105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (21352382..21451032)

    Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene multiple EGF-like-domains 6a Neighboring gene uncharacterized LOC137489119 Neighboring gene ER membrane protein complex subunit 1 Neighboring gene intermediate filament family orphan 2a Neighboring gene taste receptor, type 1, member 1

    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. Screening and functional identification of lncRNAs under β-diketone antibiotic exposure to zebrafish (Danio rerio) using high-throughput sequencing. Wang X, et al. Aquat Toxicol, 2017 Jan. PMID 27951453
    2. Molecular Genetic Anatomy and Risk Profile of Hirschsprung's Disease. Tilghman JM, et al. N Engl J Med, 2019 Apr 11. PMID 30970187, Free PMC Article
    3. DNA Methylation of T1R1 Gene in the Vegetarian Adaptation of Grass Carp Ctenopharyngodon idella. Cai W, et al. Sci Rep, 2018 May 2. PMID 29720695, Free PMC Article
    4. Rbfox-regulated alternative splicing is critical for zebrafish cardiac and skeletal muscle functions. Gallagher TL, et al. Dev Biol, 2011 Nov 15. PMID 21925157, Free PMC Article
    5. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables calmodulin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase UBR4
    Names
    retinoblastoma-associated factor 600
    XP_005162247.1
    XP_009295161.1
    XP_009295162.1
    XP_017209164.1
    XP_017209165.1
    XP_017209166.1
    XP_017209167.1
    XP_017209168.1
    XP_017209169.1
    XP_017209170.1
    XP_017209171.1
    XP_017209172.1
    XP_017209173.1
    XP_017209174.1
    XP_021329320.1
    XP_021329321.1
    XP_021329322.1
    XP_021329323.1
    XP_021329324.1
    XP_021329325.1
    XP_021329326.1
    XP_021329327.1
    XP_021329328.1
    XP_021329329.1
    XP_021329330.1
    XP_021329331.1
    XP_021329332.1
    XP_021329333.1
    XP_068072996.1
    XP_068075148.1

    NCBI Reference Sequences (RefSeq)

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    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_007134.7 Reference GRCz11 Primary Assembly

      Range
      21278932..21377583
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017353675.3 → XP_017209164.1  E3 ubiquitin-protein ligase UBR4 isoform X1

      UniProtKB/TrEMBL
      A0A8M6YVB9
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3675 → 3719
      DZR; Double zinc ribbon
      pfam13764
      Location:4382 → 5178
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    2. XM_017353680.3 → XP_017209169.1  E3 ubiquitin-protein ligase UBR4 isoform X7

      UniProtKB/TrEMBL
      A0A8M6YVC3
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3669 → 3713
      DZR; Double zinc ribbon
      pfam13764
      Location:4376 → 5172
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    3. XM_017353679.3 → XP_017209168.1  E3 ubiquitin-protein ligase UBR4 isoform X5

      UniProtKB/TrEMBL
      A0A8M9PWV4
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3669 → 3713
      DZR; Double zinc ribbon
      pfam13764
      Location:4376 → 5172
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    4. XM_017353681.3 → XP_017209170.1  E3 ubiquitin-protein ligase UBR4 isoform X8

      UniProtKB/TrEMBL
      A0A8M6Z3V7
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3667 → 3711
      DZR; Double zinc ribbon
      pfam13764
      Location:4374 → 5170
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    5. XM_017353677.3 → XP_017209166.1  E3 ubiquitin-protein ligase UBR4 isoform X3

      UniProtKB/TrEMBL
      A0A8M9PDY5
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3674 → 3718
      DZR; Double zinc ribbon
      pfam13764
      Location:4381 → 5177
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    6. XM_017353682.3 → XP_017209171.1  E3 ubiquitin-protein ligase UBR4 isoform X9

      UniProtKB/TrEMBL
      A0A8M6YVZ4
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3664 → 3708
      DZR; Double zinc ribbon
      pfam13764
      Location:4371 → 5167
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    7. XM_017353685.3 → XP_017209174.1  E3 ubiquitin-protein ligase UBR4 isoform X12

      UniProtKB/TrEMBL
      A0A8M6YVC7
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3658 → 3702
      DZR; Double zinc ribbon
      pfam13764
      Location:4365 → 5161
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    8. XM_017353684.3 → XP_017209173.1  E3 ubiquitin-protein ligase UBR4 isoform X11

      UniProtKB/TrEMBL
      A0A8M6Z4I7
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1726
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3660 → 3704
      DZR; Double zinc ribbon
      pfam13764
      Location:4367 → 5163
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    9. XM_017353678.3 → XP_017209167.1  E3 ubiquitin-protein ligase UBR4 isoform X4

      UniProtKB/TrEMBL
      A0A8M6YXU8
      Conserved Domains (3) summary
      smart00396
      Location:1657 → 1722
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3673 → 3717
      DZR; Double zinc ribbon
      pfam13764
      Location:4380 → 5176
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    10. XM_017353676.3 → XP_017209165.1  E3 ubiquitin-protein ligase UBR4 isoform X2

      UniProtKB/TrEMBL
      A0A8M6Z3V2
      Conserved Domains (3) summary
      smart00396
      Location:1658 → 1723
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3674 → 3718
      DZR; Double zinc ribbon
      pfam13764
      Location:4381 → 5177
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    11. XM_017353683.3 → XP_017209172.1  E3 ubiquitin-protein ligase UBR4 isoform X10

      UniProtKB/TrEMBL
      A0A8M9PWV7
      Conserved Domains (3) summary
      smart00396
      Location:1645 → 1710
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3661 → 3705
      DZR; Double zinc ribbon
      pfam13764
      Location:4368 → 5164
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    12. XM_005162190.4 → XP_005162247.1  E3 ubiquitin-protein ligase UBR4 isoform X6

      UniProtKB/TrEMBL
      A0A8M9Q7V9
      Conserved Domains (3) summary
      smart00396
      Location:1653 → 1718
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3669 → 3713
      DZR; Double zinc ribbon
      pfam13764
      Location:4376 → 5172
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    13. XM_068216895.1 → XP_068072996.1  E3 ubiquitin-protein ligase UBR4 isoform X13

      Related
      ENSDARP00000128666.2, ENSDART00000156701.3

    14. XM_009296886.4 → XP_009295161.1  E3 ubiquitin-protein ligase UBR4 isoform X14

      UniProtKB/TrEMBL
      A0A8M3AVE1
      Conserved Domains (3) summary
      smart00396
      Location:1637 → 1704
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3638 → 3682
      DZR; Double zinc ribbon
      pfam13764
      Location:4345 → 5141
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    15. XM_009296887.4 → XP_009295162.1  E3 ubiquitin-protein ligase UBR4 isoform X15

      UniProtKB/TrEMBL
      A0A8M9PQN9
      Related
      ENSDARP00000034465.6, ENSDART00000033970.7
      Conserved Domains (3) summary
      smart00396
      Location:1637 → 1704
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3621 → 3665
      DZR; Double zinc ribbon
      pfam13764
      Location:4328 → 5124
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395144.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      337747..436398
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021473645.2 → XP_021329320.1  E3 ubiquitin-protein ligase UBR4 isoform X1

      UniProtKB/TrEMBL
      A0A8M6YVB9
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3675 → 3719
      DZR; Double zinc ribbon
      pfam13764
      Location:4382 → 5178
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    2. XM_021473651.2 → XP_021329326.1  E3 ubiquitin-protein ligase UBR4 isoform X7

      UniProtKB/TrEMBL
      A0A8M6YVC3
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3669 → 3713
      DZR; Double zinc ribbon
      pfam13764
      Location:4376 → 5172
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    3. XM_021473649.2 → XP_021329324.1  E3 ubiquitin-protein ligase UBR4 isoform X5

      UniProtKB/TrEMBL
      A0A8M9PWV4
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3669 → 3713
      DZR; Double zinc ribbon
      pfam13764
      Location:4376 → 5172
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    4. XM_021473652.2 → XP_021329327.1  E3 ubiquitin-protein ligase UBR4 isoform X8

      UniProtKB/TrEMBL
      A0A8M6Z3V7
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3667 → 3711
      DZR; Double zinc ribbon
      pfam13764
      Location:4374 → 5170
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    5. XM_021473647.2 → XP_021329322.1  E3 ubiquitin-protein ligase UBR4 isoform X3

      UniProtKB/TrEMBL
      A0A8M9PDY5
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3674 → 3718
      DZR; Double zinc ribbon
      pfam13764
      Location:4381 → 5177
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    6. XM_021473653.2 → XP_021329328.1  E3 ubiquitin-protein ligase UBR4 isoform X9

      UniProtKB/TrEMBL
      A0A8M6YVZ4
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3664 → 3708
      DZR; Double zinc ribbon
      pfam13764
      Location:4371 → 5167
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    7. XM_021473656.2 → XP_021329331.1  E3 ubiquitin-protein ligase UBR4 isoform X12

      UniProtKB/TrEMBL
      A0A8M6YVC7
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1724
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3658 → 3702
      DZR; Double zinc ribbon
      pfam13764
      Location:4365 → 5161
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    8. XM_021473655.2 → XP_021329330.1  E3 ubiquitin-protein ligase UBR4 isoform X11

      UniProtKB/TrEMBL
      A0A8M6Z4I7
      Conserved Domains (3) summary
      smart00396
      Location:1659 → 1726
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3660 → 3704
      DZR; Double zinc ribbon
      pfam13764
      Location:4367 → 5163
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    9. XM_021473648.2 → XP_021329323.1  E3 ubiquitin-protein ligase UBR4 isoform X4

      UniProtKB/TrEMBL
      A0A8M6YXU8
      Conserved Domains (3) summary
      smart00396
      Location:1657 → 1722
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3673 → 3717
      DZR; Double zinc ribbon
      pfam13764
      Location:4380 → 5176
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    10. XM_021473646.2 → XP_021329321.1  E3 ubiquitin-protein ligase UBR4 isoform X2

      UniProtKB/TrEMBL
      A0A8M6Z3V2
      Conserved Domains (3) summary
      smart00396
      Location:1658 → 1723
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3674 → 3718
      DZR; Double zinc ribbon
      pfam13764
      Location:4381 → 5177
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    11. XM_021473654.2 → XP_021329329.1  E3 ubiquitin-protein ligase UBR4 isoform X10

      UniProtKB/TrEMBL
      A0A8M9PWV7
      Conserved Domains (3) summary
      smart00396
      Location:1645 → 1710
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3661 → 3705
      DZR; Double zinc ribbon
      pfam13764
      Location:4368 → 5164
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    12. XM_021473650.2 → XP_021329325.1  E3 ubiquitin-protein ligase UBR4 isoform X6

      UniProtKB/TrEMBL
      A0A8M9Q7V9
      Conserved Domains (3) summary
      smart00396
      Location:1653 → 1718
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3669 → 3713
      DZR; Double zinc ribbon
      pfam13764
      Location:4376 → 5172
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    13. XM_068219047.1 → XP_068075148.1  E3 ubiquitin-protein ligase UBR4 isoform X13

    14. XM_021473657.2 → XP_021329332.1  E3 ubiquitin-protein ligase UBR4 isoform X14

      UniProtKB/TrEMBL
      A0A8M3AVE1
      Conserved Domains (3) summary
      smart00396
      Location:1637 → 1704
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3638 → 3682
      DZR; Double zinc ribbon
      pfam13764
      Location:4345 → 5141
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    15. XM_021473658.2 → XP_021329333.1  E3 ubiquitin-protein ligase UBR4 isoform X15

      UniProtKB/TrEMBL
      A0A8M9PQN9
      Conserved Domains (3) summary
      smart00396
      Location:1637 → 1704
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:3621 → 3665
      DZR; Double zinc ribbon
      pfam13764
      Location:4328 → 5124
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
    Nucleotide Protein Strain
    Heading Accession and Version

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