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    snapc4 small nuclear RNA activating complex, polypeptide 4 [ Danio rerio (zebrafish) ]

    Gene ID: 561241, updated on 27-Dec-2024

    Summary

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    Official Symbol
    snapc4provided by ZNC
    Official Full Name
    small nuclear RNA activating complex, polypeptide 4provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-5794
    See related
    Ensembl:ENSDARG00000067673 AllianceGenome:ZFIN:ZDB-GENE-030131-5794
    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
    fi18h02; wu:fi18h02; si:dkey-1o2.4; si:dkey-1o2.5
    Summary
    Acts upstream of or within intrahepatic bile duct development and pancreas development. Predicted to be located in nucleus. Is expressed in brain; digestive system; and head. Orthologous to human SNAPC4 (small nuclear RNA activating complex polypeptide 4). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See snapc4 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (51168832..51198464, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (50522239..50551951, complement)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene protein-O-mannosyltransferase 1 Neighboring gene coiled-coil domain containing 180 Neighboring gene caspase recruitment domain family, member 9 Neighboring gene endosome associated trafficking regulator 1 Neighboring gene UBA domain containing 1

    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. Mutation of zebrafish Snapc4 is associated with loss of the intrahepatic biliary network. Schaub M, et al. Dev Biol, 2012 Mar 1. PMID 22222761, Free PMC Article
    2. Fast homozygosity mapping and identification of a zebrafish ENU-induced mutation by whole-genome sequencing. Voz ML, et al. PLoS One, 2012. PMID 22496837, Free PMC Article
    3. Structure and expression pattern of teleost caspase recruitment domain (CARD) containing proteins that are potentially involved in NF-kappaB signalling. Chang MX, et al. Dev Comp Immunol, 2010 Jan. PMID 19699229
    4. Mutations in FAM50A suggest that Armfield XLID syndrome is a spliceosomopathy. Lee YR, et al. Nat Commun, 2020 Jul 23. PMID 32703943, Free PMC Article
    5. Zebrafish models of human liver development and disease. Wilkins BJ, et al. Compr Physiol, 2013 Jul. PMID 23897685, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within intrahepatic bile duct development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pancreas development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    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_001258410.1 → NP_001245339.1  snRNA-activating protein complex subunit 4

      See identical proteins and their annotated locations for NP_001245339.1

      Status: PROVISIONAL

      Source sequence(s)
      JQ434101
      UniProtKB/TrEMBL
      A0A8M3ASS0, I1V1W6
      Conserved Domains (4) summary
      smart00717
      Location:373 → 424
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      pfam00249
      Location:428 → 474
      Myb_DNA-binding; Myb-like DNA-binding domain
      pfam13921
      Location:376 → 439
      Myb_DNA-bind_6; Myb-like DNA-binding domain
      cl21498
      Location:316 → 369
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    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_007116.7 Reference GRCz11 Primary Assembly

      Range
      51168832..51198464 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009301777.4 → XP_009300052.2  snRNA-activating protein complex subunit 4 isoform X1

      UniProtKB/TrEMBL
      A0A8M3ASS0

    2. XM_021476210.2 → XP_021331885.1  snRNA-activating protein complex subunit 4 isoform X2

      UniProtKB/TrEMBL
      A0A0R4IFN5, A0A8M3ASS0, A0A8M6Z6X7, F1QVS5
      Related
      ENSDARP00000088244.5, ENSDART00000097473.5
      Conserved Domains (5) summary
      pfam00249
      Location:428 → 474
      Myb_DNA-binding; Myb-like DNA-binding domain
      pfam13921
      Location:376 → 439
      Myb_DNA-bind_6; Myb-like DNA-binding domain
      cl21498
      Location:316 → 369
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
      cl25732
      Location:5 → 150
      SMC_N; RecF/RecN/SMC N terminal domain
      cl28544
      Location:426 → 539
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

    3. XM_021476209.2 → XP_021331884.1  snRNA-activating protein complex subunit 4 isoform X2

      UniProtKB/TrEMBL
      A0A0R4IFN5, A0A8M3ASS0, A0A8M6Z6X7, F1QVS5
      Conserved Domains (5) summary
      pfam00249
      Location:428 → 474
      Myb_DNA-binding; Myb-like DNA-binding domain
      pfam13921
      Location:376 → 439
      Myb_DNA-bind_6; Myb-like DNA-binding domain
      cl21498
      Location:316 → 369
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
      cl25732
      Location:5 → 150
      SMC_N; RecF/RecN/SMC N terminal domain
      cl28544
      Location:426 → 539
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

    4. XM_017356122.3 → XP_017211611.2  snRNA-activating protein complex subunit 4 isoform X2

      UniProtKB/TrEMBL
      A0A0R4IFN5, A0A8M3ASS0, A0A8M6Z6X7, F1QVS5
      Related
      ENSDARP00000132199.1, ENSDART00000165870.2
      Conserved Domains (5) summary
      pfam00249
      Location:428 → 474
      Myb_DNA-binding; Myb-like DNA-binding domain
      pfam13921
      Location:376 → 439
      Myb_DNA-bind_6; Myb-like DNA-binding domain
      cl21498
      Location:316 → 369
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
      cl25732
      Location:5 → 150
      SMC_N; RecF/RecN/SMC N terminal domain
      cl28544
      Location:426 → 539
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394610.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      299752..315471 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394611.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      3202..12583 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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