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    Snapc3 small nuclear RNA activating complex, polypeptide 3 [ Mus musculus (house mouse) ]

    Gene ID: 77634, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Snapc3provided by MGI
    Official Full Name
    small nuclear RNA activating complex, polypeptide 3provided by MGI
    Primary source
    MGI:MGI:1916338
    See related
    Ensembl:ENSMUSG00000028483 AllianceGenome:MGI:1916338
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    1810020H02Rik; 4930558A07Rik; 5031401C21Rik; E030018J20Rik
    Summary
    Predicted to enable RNA polymerase III type 3 promoter sequence-specific DNA binding activity and bent DNA binding activity. Predicted to contribute to RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and core promoter sequence-specific DNA binding activity. Predicted to be involved in snRNA transcription by RNA polymerase II and snRNA transcription by RNA polymerase III. Predicted to be located in nuclear body and nucleolus. Predicted to be part of snRNA-activating protein complex. Is expressed in several structures, including nervous system and sensory organ. Orthologous to human SNAPC3 (small nuclear RNA activating complex polypeptide 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in CNS E11.5 (RPKM 14.7), CNS E14 (RPKM 14.0) and 22 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Snapc3 in Genome Data Viewer
    Location:
    4 C3; 4 39.46 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (83333948..83391256)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (83415711..83473019)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer mm9_chr4:82969964-82970265 Neighboring gene STARR-seq mESC enhancer starr_10639 Neighboring gene predicted gene, 42306 Neighboring gene predicted gene 11413 Neighboring gene predicted gene 11184 Neighboring gene STARR-seq mESC enhancer starr_10641 Neighboring gene STARR-positive B cell enhancer mm9_chr4:83063359-83063659 Neighboring gene STARR-seq mESC enhancer starr_10644 Neighboring gene PC4 and SFRS1 interacting protein 1 Neighboring gene ribosomal protein L34 pseudogene Neighboring gene predicted gene, 42308

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Disruption of Ledgf/Psip1 results in perinatal mortality and homeotic skeletal transformations. Sutherland HG, et al. Mol Cell Biol, 2006 Oct. PMID 16980622, Free PMC Article
    2. Characterization of an exchangeable gene trap using pU-17 carrying a stop codon-beta geo cassette. Taniwaki T, et al. Dev Growth Differ, 2005 Apr. PMID 15840001
    3. Exchangeable gene trap using the Cre/mutated lox system. Araki K, et al. Cell Mol Biol (Noisy-le-grand), 1999 Jul. PMID 10512203
    4. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
    5. Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Bedogni F, et al. Front Mol Neurosci, 2021. PMID 34321999, Free PMC Article

    See all (24) citations in PubMed

    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 MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    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 III type 3 promoter sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables bent DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    contributes_to core promoter sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in snRNA transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in snRNA transcription by RNA polymerase III IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nuclear body IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of snRNA-activating protein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    snRNA-activating protein complex subunit 3
    Names
    SNAPc subunit 3

    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_001358795.1 → NP_001345724.1  snRNA-activating protein complex subunit 3 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks alternate 3' coding exons and differs in the 3' coding region and 3' UTR compared to variant 1. The encoded isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AK016168, AK049933, BE993334
      Consensus CDS
      CCDS89770.1
      UniProtKB/TrEMBL
      Q9CQB0
      Related
      ENSMUSP00000102842.2, ENSMUST00000071544.11
      Conserved Domains (1) summary
      pfam12251
      Location:198 → 269
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    2. NM_029949.4 → NP_084225.1  snRNA-activating protein complex subunit 3 isoform 1

      See identical proteins and their annotated locations for NP_084225.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AK049933, BC048713
      Consensus CDS
      CCDS38792.1
      UniProtKB/Swiss-Prot
      Q8C0A5, Q9D2C9
      Related
      ENSMUSP00000030206.4, ENSMUST00000030206.10
      Conserved Domains (1) summary
      pfam12251
      Location:198 → 399
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    RNA

    1. NR_152448.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains additional 3' exons compared to variant 1. This variant is represented as non-coding because use of the 5' expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK019863, AK049933, BX682545

    2. NR_152449.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) contains an alternate internal exon and additional 3' exons compared to variant 1. This variant is represented as non-coding because use of the 5' expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL670851, BX682545

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      83333948..83391256
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011250134.3 → XP_011248436.1  snRNA-activating protein complex subunit 3 isoform X2

      See identical proteins and their annotated locations for XP_011248436.1

      UniProtKB/Swiss-Prot
      Q8C0A5, Q9D2C9
      Conserved Domains (1) summary
      pfam12251
      Location:198 → 399
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    2. XM_006538369.4 → XP_006538432.1  snRNA-activating protein complex subunit 3 isoform X2

      See identical proteins and their annotated locations for XP_006538432.1

      UniProtKB/Swiss-Prot
      Q8C0A5, Q9D2C9
      Conserved Domains (1) summary
      pfam12251
      Location:198 → 399
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    3. XM_006538370.4 → XP_006538433.1  snRNA-activating protein complex subunit 3 isoform X2

      See identical proteins and their annotated locations for XP_006538433.1

      UniProtKB/Swiss-Prot
      Q8C0A5, Q9D2C9
      Related
      ENSMUSP00000124181.2, ENSMUST00000124856.8
      Conserved Domains (1) summary
      pfam12251
      Location:198 → 399
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    4. XM_017320455.2 → XP_017175944.1  snRNA-activating protein complex subunit 3 isoform X2

      UniProtKB/Swiss-Prot
      Q8C0A5, Q9D2C9
      Conserved Domains (1) summary
      pfam12251
      Location:198 → 399
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    5. XM_030253911.1 → XP_030109771.1  snRNA-activating protein complex subunit 3 isoform X2

      UniProtKB/Swiss-Prot
      Q8C0A5, Q9D2C9
      Related
      ENSMUSP00000123793.2, ENSMUST00000143533.8
      Conserved Domains (1) summary
      pfam12251
      Location:198 → 399
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    6. XM_036164546.1 → XP_036020439.1  snRNA-activating protein complex subunit 3 isoform X1

      UniProtKB/TrEMBL
      V9H0W7
      Conserved Domains (5) summary
      cd07557
      Location:880 → 967
      trimeric_dUTPase; Trimeric dUTP diphosphatases
      cd03715
      Location:18 → 225
      RT_ZFREV_like; A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT. An RT gene is usually indicative of a mobile element such as a retrotransposon or ...
      pfam00665
      Location:692 → 788
      rve; Integrase core domain
      pfam17919
      Location:309 → 387
      RT_RNaseH_2; RNase H-like domain found in reverse transcriptase
      cl14782
      Location:480 → 617
      RNase_H_like; Ribonuclease H-like superfamily, including RNase H, HI, HII, HIII, and RNase-like domain IV of spliceosomal protein Prp8

    7. XM_036164547.1 → XP_036020440.1  snRNA-activating protein complex subunit 3 isoform X1

      UniProtKB/TrEMBL
      V9H0W7
      Conserved Domains (5) summary
      cd07557
      Location:880 → 967
      trimeric_dUTPase; Trimeric dUTP diphosphatases
      cd03715
      Location:18 → 225
      RT_ZFREV_like; A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT. An RT gene is usually indicative of a mobile element such as a retrotransposon or ...
      pfam00665
      Location:692 → 788
      rve; Integrase core domain
      pfam17919
      Location:309 → 387
      RT_RNaseH_2; RNase H-like domain found in reverse transcriptase
      cl14782
      Location:480 → 617
      RNase_H_like; Ribonuclease H-like superfamily, including RNase H, HI, HII, HIII, and RNase-like domain IV of spliceosomal protein Prp8

    8. XM_030253916.2 → XP_030109776.1  snRNA-activating protein complex subunit 3 isoform X4

      Conserved Domains (1) summary
      pfam12251
      Location:198 → 268
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    9. XM_030253915.2 → XP_030109775.1  snRNA-activating protein complex subunit 3 isoform X4

      Conserved Domains (1) summary
      pfam12251
      Location:198 → 268
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    10. XM_036164548.1 → XP_036020441.1  snRNA-activating protein complex subunit 3 isoform X5

      Conserved Domains (1) summary
      pfam12251
      Location:198 → 220
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    11. XM_030253914.2 → XP_030109774.1  snRNA-activating protein complex subunit 3 isoform X4

      Conserved Domains (1) summary
      pfam12251
      Location:198 → 268
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal

    12. XM_030253913.2 → XP_030109773.1  snRNA-activating protein complex subunit 3 isoform X3

      Conserved Domains (1) summary
      pfam12251
      Location:198 → 269
      zf-SNAP50_C; snRNA-activating protein of 50kDa MW C terminal
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D2C9.2 GenPept UniProtKB/Swiss-Prot:Q9D2C9

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