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    rpap2 RNA polymerase II associated protein 2 [ Danio rerio (zebrafish) ]

    Gene ID: 554138, updated on 9-Dec-2024

    Summary

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    Official Symbol
    rpap2provided by ZNC
    Official Full Name
    RNA polymerase II associated protein 2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050522-420
    See related
    Ensembl:ENSDARG00000038397 AllianceGenome:ZFIN:ZDB-GENE-050522-420
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    im:7149428; wu:fc90e06; zgc:112291
    Summary
    Predicted to enable RNA polymerase II CTD heptapeptide repeat phosphatase activity. Predicted to be involved in PERK-mediated unfolded protein response and snRNA transcription. Predicted to be located in cytoplasm and nucleus. Predicted to be part of transcription preinitiation complex. Orthologous to human RPAP2 (RNA polymerase II associated protein 2). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See rpap2 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (10790875..10821053, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (11007276..11037495, complement)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137487670 Neighboring gene growth factor independent 1A transcription repressor a Neighboring gene glomulin, FKBP associated protein a Neighboring gene cell division cycle 7 homolog (S. cerevisiae)

    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. Distinct requirements for Wntless in habenular development. Kuan YS, et al. Dev Biol, 2015 Oct 15. PMID 26116173, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. 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
    4. 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 RNA polymerase II CTD heptapeptide repeat phosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II CTD heptapeptide repeat phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II CTD heptapeptide repeat phosphatase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables RNA polymerase core enzyme binding 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 myosin phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphoprotein phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein serine/threonine phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in PERK-mediated unfolded protein response ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in snRNA transcription 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
    		  
    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
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of transcription preinitiation complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    putative RNA polymerase II subunit B1 CTD phosphatase rpap2
    NP_001019603.2
    NP_001264859.1

    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_001024432.3 → NP_001019603.2  putative RNA polymerase II subunit B1 CTD phosphatase rpap2 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame segment compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      CR450845
      UniProtKB/TrEMBL
      A0A8M1N6W7
      Conserved Domains (1) summary
      pfam04181
      Location:75 → 146
      RPAP2_Rtr1; Rtr1/RPAP2 family

    2. NM_001277930.1 → NP_001264859.1  putative RNA polymerase II subunit B1 CTD phosphatase rpap2 isoform 1

      See identical proteins and their annotated locations for NP_001264859.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      CR450845
      UniProtKB/Swiss-Prot
      B0UYH6
      UniProtKB/TrEMBL
      A0A8M2BIG0
      Related
      ENSDARP00000056033.6, ENSDART00000056034.8
      Conserved Domains (1) summary
      pfam04181
      Location:75 → 146
      RPAP2_Rtr1; Rtr1/RPAP2 family

    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_007113.7 Reference GRCz11 Primary Assembly

      Range
      10790875..10821053 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    B0UYH6.1 GenPept UniProtKB/Swiss-Prot:B0UYH6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.