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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

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