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    u2af2b U2 small nuclear RNA auxiliary factor 2b [ Danio rerio (zebrafish) ]

    Gene ID: 402989, updated on 9-Dec-2024

    Summary

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    Official Symbol
    u2af2bprovided by ZNC
    Official Full Name
    U2 small nuclear RNA auxiliary factor 2bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1881
    See related
    Ensembl:ENSDARG00000011740 AllianceGenome:ZFIN:ZDB-GENE-040426-1881
    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
    zgc:77804; wu:fb73g02
    Summary
    Predicted to enable poly-pyrimidine tract binding activity and pre-mRNA 3'-splice site binding activity. Predicted to be involved in spliceosomal complex assembly. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of U2-type prespliceosome; U2AF complex; and commitment complex. Predicted to be active in nuclear speck. Human ortholog(s) of this gene implicated in developmental delay, dysmorphic facies, and brain anomalies. Orthologous to human U2AF2 (U2 small nuclear RNA auxiliary factor 2). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See u2af2b in Genome Data Viewer
    Location:
    chromosome: 19
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (10299002..10324237, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (10380077..10405462, complement)

    Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene CCR4-NOT transcription complex, subunit 3b Neighboring gene uncharacterized LOC137488477 Neighboring gene coiled-coil domain containing 106b Neighboring gene transmembrane protein 238a

    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. RNA structure replaces the need for U2AF2 in splicing. Lin CL, et al. Genome Res, 2016 Jan. PMID 26566657, Free PMC Article
    2. Triclosan regulates alternative splicing events of nerve-related genes through RNA-binding protein CELF2 to induce zebrafish neurotoxicity. Wang D, et al. J Hazard Mater, 2021 Jul 5. PMID 33621777
    3. Dynamic RNA-protein interactions underlie the zebrafish maternal-to-zygotic transition. Despic V, et al. Genome Res, 2017 Jul. PMID 28381614, Free PMC Article
    4. RNA-Seq analysis in mutant zebrafish reveals role of U1C protein in alternative splicing regulation. Rösel TD, et al. EMBO J, 2011 May 18. PMID 21468032, Free PMC Article
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC77804

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables poly-pyrimidine tract binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables pre-mRNA 3'-splice site binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in spliceosomal complex assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of U2-type prespliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2AF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of commitment complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    U2 small nuclear RNA auxiliary factor 2b

    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_205689.1 → NP_991252.1  U2 small nuclear RNA auxiliary factor 2b

      See identical proteins and their annotated locations for NP_991252.1

      Status: PROVISIONAL

      Source sequence(s)
      BC065869
      UniProtKB/TrEMBL
      A0A8M1PEX3, Q6P022
      Related
      ENSDARP00000023679.7, ENSDART00000023571.9
      Conserved Domains (4) summary
      cd12230
      Location:151 → 232
      RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12231
      Location:262 → 338
      RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12232
      Location:375 → 461
      RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      TIGR01642
      Location:4 → 474
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor

    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_007130.7 Reference GRCz11 Primary Assembly

      Range
      10299002..10324237 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009294037.4 → XP_009292312.1  U2 small nuclear RNA auxiliary factor 2b isoform X8

      UniProtKB/TrEMBL
      A0A8M3AK10, A0A8M9PJH8
      Conserved Domains (4) summary
      cd12230
      Location:132 → 213
      RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12231
      Location:243 → 319
      RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12232
      Location:356 → 442
      RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      TIGR01642
      Location:4 → 455
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor

    2. XM_009294036.4 → XP_009292311.1  U2 small nuclear RNA auxiliary factor 2b isoform X7

      UniProtKB/TrEMBL
      A0A8M3ASD1, A0A8M9PJH8
      Conserved Domains (4) summary
      cd12230
      Location:132 → 213
      RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12231
      Location:248 → 324
      RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12232
      Location:361 → 447
      RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      TIGR01642
      Location:4 → 460
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor

    3. XM_068215059.1 → XP_068071160.1  U2 small nuclear RNA auxiliary factor 2b isoform X4

    4. XM_009294033.4 → XP_009292308.1  U2 small nuclear RNA auxiliary factor 2b isoform X3

      UniProtKB/TrEMBL
      A0A8M3B3C5
      Conserved Domains (4) summary
      cd12230
      Location:144 → 225
      RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12231
      Location:260 → 336
      RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12232
      Location:373 → 459
      RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      TIGR01642
      Location:4 → 472
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor

    5. XM_009294035.4 → XP_009292310.1  U2 small nuclear RNA auxiliary factor 2b isoform X6

      UniProtKB/TrEMBL
      A0A8M3AVC4
      Conserved Domains (3) summary
      cd12230
      Location:139 → 220
      RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12231
      Location:250 → 326
      RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12232
      Location:363 → 449
      RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

    6. XM_009294034.4 → XP_009292309.1  U2 small nuclear RNA auxiliary factor 2b isoform X5

      UniProtKB/TrEMBL
      A0A8M3AKT5
      Conserved Domains (3) summary
      cd12230
      Location:139 → 220
      RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12231
      Location:255 → 331
      RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12232
      Location:368 → 454
      RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

    7. XM_009294032.4 → XP_009292307.1  U2 small nuclear RNA auxiliary factor 2b isoform X2

      UniProtKB/TrEMBL
      A0A8M3AK05
      Conserved Domains (3) summary
      cd12230
      Location:151 → 232
      RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12231
      Location:266 → 342
      RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12232
      Location:379 → 465
      RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

    8. XM_009294031.3 → XP_009292306.1  U2 small nuclear RNA auxiliary factor 2b isoform X1

      UniProtKB/TrEMBL
      A0A0R4IMP0, A0A8M3ASC8
      Related
      ENSDARP00000137574.1, ENSDART00000171795.2
      Conserved Domains (3) summary
      cd12230
      Location:151 → 232
      RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12231
      Location:267 → 343
      RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12232
      Location:380 → 466
      RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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