U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    gpkow G patch domain and KOW motifs [ Danio rerio (zebrafish) ]

    Gene ID: 368735, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    gpkowprovided by ZNC
    Official Full Name
    G patch domain and KOW motifsprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030616-159
    See related
    Ensembl:ENSDARG00000029612 AllianceGenome:ZFIN:ZDB-GENE-030616-159
    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
    t54l; wu:fb38d03; zgc:152714; si:dz150f13.5; mp:zf637-1-001655
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of spliceosomal complex. Orthologous to human GPKOW (G-patch domain and KOW motifs). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See gpkow in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (36591772..36618080, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 8 NC_007119.6 (36559338..36585646, complement)

    Chromosome 8 - NC_007119.7Genomic Context describing neighboring genes Neighboring gene 5S ribosomal RNA Neighboring gene polyglutamine binding protein 1 Neighboring gene novel protein similar to vertebrate membrane associated guanylate kinase, WW and PDZ domain containing 1 (MAGI1) Neighboring gene IQ motif and Sec7 domain ArfGEF 2b

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. A subtracted cDNA library from the zebrafish (Danio rerio) embryonic inner ear. Coimbra RS, et al. Genome Res, 2002 Jun. PMID 12045154, Free PMC Article
    2. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, Free PMC Article
    3. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Homology

    Clone Names

    • MGC152714

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    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 mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of spliceosomal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    G-patch domain and KOW motifs-containing protein
    Names
    T54 protein-like
    g patch domain and KOW motifs-containing protein
    protein T54-like

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001007207.1 → NP_001007208.1  G-patch domain and KOW motifs-containing protein

      See identical proteins and their annotated locations for NP_001007208.1

      Status: PROVISIONAL

      Source sequence(s)
      AL591213
      UniProtKB/Swiss-Prot
      Q0IIR0, Q1JQ02, Q3B7E2, Q90X38
      Related
      ENSDARP00000047911.7, ENSDART00000047912.9
      Conserved Domains (3) summary
      cd13152
      Location:254 → 310
      KOW_GPKOW_A; KOW motif of the "G-patch domain and KOW motifs-containing protein" (GPKOW) repeat A
      cd13153
      Location:452 → 502
      KOW_GPKOW_B; KOW motif of the "G-patch domain and KOW motifs-containing protein" (GPKOW) repeat B
      pfam12656
      Location:156 → 222
      G-patch_2; DExH-box splicing factor binding site

    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_007119.7 Reference GRCz11 Primary Assembly

      Range
      36591772..36618080 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001045861.1: Suppressed sequence

      Description
      NM_001045861.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q90X38.2 GenPept UniProtKB/Swiss-Prot:Q90X38

    Gene LinkOut

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

    Molecular Biology Databases
    Research Materials
    Tools