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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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See Snapc4 in Genome Data Viewer
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

Gene LinkOut

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