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    Snapc4 small nuclear RNA activating complex, polypeptide 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362088, updated on 30-Mar-2024

    Summary

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    Official Symbol
    Snapc4provided by RGD
    Official Full Name
    small nuclear RNA activating complex, polypeptide 4provided by RGD
    Primary source
    RGD:1309048
    See related
    Ensembl:ENSRNOG00000018845 AllianceGenome:RGD:1309048
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable DNA binding activity; RNA polymerase II general transcription initiation factor activity; and RNA polymerase III general transcription initiation factor activity. Predicted to be involved in snRNA transcription by RNA polymerase II and snRNA transcription by RNA polymerase III. Predicted to be part of snRNA-activating protein complex. Orthologous to human SNAPC4 (small nuclear RNA activating complex polypeptide 4). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Adrenal (RPKM 25.0), Brain (RPKM 21.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    3p13
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (29580157..29598440, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (9182061..9200819, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (3808596..3827425, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene G-protein signaling modulator 1 Neighboring gene DNL-type zinc finger Neighboring gene caspase recruitment domain family, member 9 Neighboring gene endosome associated trafficking regulator 1 Neighboring gene peptidase, mitochondrial processing subunit alpha Neighboring gene inositol polyphosphate-5-phosphatase E

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The large subunit of basal transcription factor SNAPc is a Myb domain protein that interacts with Oct-1. Wong MW, et al. Mol Cell Biol, 1998 Jan. PMID 9418884, Free PMC Article
    2. A map of protein-protein contacts within the small nuclear RNA-activating protein complex SNAPc. Ma B, et al. J Biol Chem, 2001 Feb 16. PMID 11056176
    3. A structural perspective on RNA polymerase I and RNA polymerase III transcription machineries. Vannini A. Biochim Biophys Acta, 2013 Mar-Apr. PMID 23031840
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II general transcription initiation factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase III general transcription initiation factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase III type 3 promoter sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in snRNA transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in snRNA transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in snRNA transcription by RNA polymerase III IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in snRNA transcription by RNA polymerase III ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of snRNA-activating protein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of snRNA-activating protein complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    snRNA-activating protein complex subunit 4

    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_001108574.2 → NP_001102044.2  snRNA-activating protein complex subunit 4

      Status: VALIDATED

      Source sequence(s)
      BE097840, JAXUCZ010000003
      UniProtKB/TrEMBL
      D4A3C9, F1LYZ6
      Related
      ENSRNOP00000061702.3, ENSRNOT00000068110.5
      Conserved Domains (4) summary
      smart00717
      Location:453 → 496
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:787 → 1157
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:192 → 399
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:404 → 464
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086021.1 Reference GRCr8

      Range
      29580157..29598440 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006233716.4 → XP_006233778.1  snRNA-activating protein complex subunit 4 isoform X1

      See identical proteins and their annotated locations for XP_006233778.1

      UniProtKB/TrEMBL
      D4A3C9, F1LYZ6
      Conserved Domains (4) summary
      smart00717
      Location:453 → 496
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:787 → 1157
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:192 → 399
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:404 → 464
      Myb_DNA-bind_6; Myb-like DNA-binding domain
    Nucleotide Protein Strain
    Heading Accession and Version

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