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

Gene ID: 402989, updated on 11-Apr-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 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. Orthologous to human U2AF2 (U2 small nuclear RNA auxiliary factor 2). [provided by Alliance of Genome Resources, Apr 2022]
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
106 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (10299002..10324387, 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 shisa family member 7 Neighboring gene CCR4-NOT transcription complex, subunit 3b 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: Danio rerio Annotation Release 106 details...Open this link in a new tab

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..10324387 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009294031.2 → 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

  2. XM_009294034.3 → XP_009292309.1  U2 small nuclear RNA auxiliary factor 2b isoform X4

    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

  3. XM_009294036.3 → XP_009292311.1  U2 small nuclear RNA auxiliary factor 2b isoform X6

    UniProtKB/TrEMBL
    A0A8M3ASD1
    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

  4. XM_009294033.3 → 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_009294032.3 → 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

  6. XM_009294035.3 → XP_009292310.1  U2 small nuclear RNA auxiliary factor 2b isoform X5

    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

  7. XM_009294037.3 → XP_009292312.1  U2 small nuclear RNA auxiliary factor 2b isoform X7

    UniProtKB/TrEMBL
    A0A8M3AK10
    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
Nucleotide Protein Strain
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