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    Snapc4 small nuclear RNA activating complex, polypeptide 4 [ Mus musculus (house mouse) ]

    Gene ID: 227644, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Snapc4provided by MGI
    Official Full Name
    small nuclear RNA activating complex, polypeptide 4provided by MGI
    Primary source
    MGI:MGI:2443935
    See related
    Ensembl:ENSMUSG00000036281 AllianceGenome:MGI:2443935
    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
    5730436L13Rik
    Summary
    Predicted to enable RNA polymerase II general transcription initiation factor activity; RNA polymerase III general transcription initiation factor activity; and RNA polymerase III type 3 promoter sequence-specific DNA binding activity. Predicted to contribute to RNA polymerase II cis-regulatory region 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 nucleus. Predicted to be part of snRNA-activating protein complex. Is expressed in several structures, including central nervous system; early conceptus; and genitourinary system. Orthologous to human SNAPC4 (small nuclear RNA activating complex polypeptide 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in ovary adult (RPKM 8.1), genital fat pad adult (RPKM 7.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Snapc4 in Genome Data Viewer
    Location:
    2 A3; 2 18.87 cM
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (26252777..26270666, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (26362765..26380661, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene G-protein signalling modulator 1 (AGS3-like, C. elegans) Neighboring gene DNL-type zinc finger Neighboring gene predicted gene 13562 Neighboring gene caspase recruitment domain family, member 9 Neighboring gene endosome associated trafficking regulator 1 Neighboring gene peptidase (mitochondrial processing) alpha Neighboring gene inositol polyphosphate-5-phosphatase E Neighboring gene STARR-positive B cell enhancer ABC_E5900

    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
    • 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. A collection of cDNAs enriched in upper cortical layers of the embryonic mouse brain. García-Frigola C, et al. Brain Res Mol Brain Res, 2004 Mar 30. PMID 15010206
    2. Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst. Guo G, et al. Dev Cell, 2010 Apr 20. PMID 20412781
    3. An atlas of combinatorial transcriptional regulation in mouse and man. Ravasi T, et al. Cell, 2010 Mar 5. PMID 20211142, Free PMC Article
    4. Mouse screen reveals multiple new genes underlying mouse and human hearing loss. Ingham NJ, et al. PLoS Biol, 2019 Apr. PMID 30973865, Free PMC Article
    5. A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Yokoyama S, et al. Dev Cell, 2009 Dec. PMID 20059953, Free PMC Article

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (1) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Clone Names

    • MGC59524

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA binding ISS
    Inferred from Sequence or Structural Similarity
    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 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 II ISS
    Inferred from Sequence or Structural Similarity
    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
    		  
    involved_in snRNA transcription by RNA polymerase III ISS
    Inferred from Sequence or Structural Similarity
    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
    		  
    part_of snRNA-activating protein complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    snRNA-activating protein complex subunit 4
    Names
    SNAPc subunit 4
    snRNA-activating protein complex 190 kDa subunit

    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_001290419.2 → NP_001277348.1  snRNA-activating protein complex subunit 4 isoform b

      See identical proteins and their annotated locations for NP_001277348.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) includes an additional exon in the 5' region, and it thus differs in its 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a.
      Source sequence(s)
      AL732541
      UniProtKB/TrEMBL
      A2AIV6
      Related
      ENSMUST00000149850.8
      Conserved Domains (5) summary
      smart00717
      Location:311 → 358
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      cd00167
      Location:365 → 406
      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 ...
      pfam13921
      Location:314 → 374
      Myb_DNA-bind_6; Myb-like DNA-binding domain
      cl09111
      Location:110 → 162
      Prefoldin; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits ...
      cl21498
      Location:172 → 215
      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 ...

    2. NM_001406731.1 → NP_001393660.1  snRNA-activating protein complex subunit 4 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL732541
      UniProtKB/Swiss-Prot
      Q6PGG7, Q80UG9, Q810L1, Q8BP86

    3. NM_001406732.1 → NP_001393661.1  snRNA-activating protein complex subunit 4 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL732541
      UniProtKB/Swiss-Prot
      Q6PGG7, Q80UG9, Q810L1, Q8BP86

    4. NM_001406733.1 → NP_001393662.1  snRNA-activating protein complex subunit 4 isoform a

      Status: VALIDATED

      Source sequence(s)
      AL732541

    5. NM_001406734.1 → NP_001393663.1  snRNA-activating protein complex subunit 4 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL732541

    6. NM_001406735.1 → NP_001393664.1  snRNA-activating protein complex subunit 4 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AL732541

    7. NM_001406736.1 → NP_001393665.1  snRNA-activating protein complex subunit 4 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AL732541

    8. NM_001406737.1 → NP_001393666.1  snRNA-activating protein complex subunit 4 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AL732541

    9. NM_001406738.1 → NP_001393667.1  snRNA-activating protein complex subunit 4 isoform 7

      Status: VALIDATED

      Source sequence(s)
      AL732541

    10. NM_001406739.1 → NP_001393668.1  snRNA-activating protein complex subunit 4 isoform 7

      Status: VALIDATED

      Source sequence(s)
      AL732541

    11. NM_172339.5 → NP_758842.1  snRNA-activating protein complex subunit 4 isoform a

      See identical proteins and their annotated locations for NP_758842.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shorter transcript but encodes the longer isoform (a).
      Source sequence(s)
      AL732541
      Consensus CDS
      CCDS15802.1
      UniProtKB/TrEMBL
      A2AIV6
      Related
      ENSMUSP00000041767.5, ENSMUST00000035427.11
      Conserved Domains (5) summary
      smart00717
      Location:401 → 448
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      cd00167
      Location:455 → 496
      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 ...
      pfam13921
      Location:404 → 464
      Myb_DNA-bind_6; Myb-like DNA-binding domain
      cl09111
      Location:200 → 252
      Prefoldin; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits ...
      cl21498
      Location:262 → 305
      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_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_000068.8 Reference GRCm39 C57BL/6J

      Range
      26252777..26270666 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011239065.4 → XP_011237367.1  snRNA-activating protein complex subunit 4 isoform X2

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:461 → 504
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:815 → 1174
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:200 → 407
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:412 → 472
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    2. XM_011239064.4 → XP_011237366.1  snRNA-activating protein complex subunit 4 isoform X1

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:461 → 504
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:815 → 1174
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:200 → 407
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:412 → 472
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    3. XM_036160757.1 → XP_036016650.1  snRNA-activating protein complex subunit 4 isoform X14

      Conserved Domains (1) summary
      PHA03247
      Location:124 → 494
      PHA03247; large tegument protein UL36; Provisional

    4. XM_030249765.2 → XP_030105625.1  snRNA-activating protein complex subunit 4 isoform X14

      Conserved Domains (1) summary
      PHA03247
      Location:124 → 494
      PHA03247; large tegument protein UL36; Provisional

    5. XM_036160749.1 → XP_036016642.1  snRNA-activating protein complex subunit 4 isoform X10

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:301 → 344
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:634 → 993
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:2 → 284
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:252 → 312
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    6. XM_030249744.2 → XP_030105604.1  snRNA-activating protein complex subunit 4 isoform X7

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:363 → 406
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:696 → 1055
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:102 → 309
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:314 → 374
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    7. XM_030249743.2 → XP_030105603.1  snRNA-activating protein complex subunit 4 isoform X6

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:363 → 406
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:717 → 1076
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:102 → 309
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:314 → 374
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    8. XM_036160748.1 → XP_036016641.1  snRNA-activating protein complex subunit 4 isoform X9

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:301 → 344
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:655 → 1014
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:2 → 284
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:252 → 312
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    9. XM_011239066.4 → XP_011237368.1  snRNA-activating protein complex subunit 4 isoform X3

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:453 → 496
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:807 → 1166
      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

    10. XM_036160746.1 → XP_036016639.1  snRNA-activating protein complex subunit 4 isoform X9

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:301 → 344
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:655 → 1014
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:2 → 284
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:252 → 312
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    11. XM_030249751.2 → XP_030105611.1  snRNA-activating protein complex subunit 4 isoform X11

      Conserved Domains (4) summary
      smart00717
      Location:98 → 141
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:452 → 811
      PHA03247; large tegument protein UL36; Provisional
      pfam13921
      Location:49 → 109
      Myb_DNA-bind_6; Myb-like DNA-binding domain
      cl21498
      Location:18 → 57
      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 ...

    12. XM_011239069.4 → XP_011237371.1  snRNA-activating protein complex subunit 4 isoform X9

      See identical proteins and their annotated locations for XP_011237371.1

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:301 → 344
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:655 → 1014
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:2 → 284
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:252 → 312
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    13. XM_011239070.4 → XP_011237372.1  snRNA-activating protein complex subunit 4 isoform X9

      See identical proteins and their annotated locations for XP_011237372.1

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:301 → 344
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:655 → 1014
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:2 → 284
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:252 → 312
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    14. XM_011239067.4 → XP_011237369.1  snRNA-activating protein complex subunit 4 isoform X6

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:363 → 406
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:717 → 1076
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:102 → 309
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:314 → 374
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    15. XM_011239068.3 → XP_011237370.1  snRNA-activating protein complex subunit 4 isoform X8

      UniProtKB/TrEMBL
      A2AIV6
      Conserved Domains (4) summary
      smart00717
      Location:314 → 357
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      PHA03247
      Location:668 → 1027
      PHA03247; large tegument protein UL36; Provisional
      COG5147
      Location:53 → 260
      REB1; Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
      pfam13921
      Location:265 → 325
      Myb_DNA-bind_6; Myb-like DNA-binding domain

    RNA

    1. XR_004939571.1 RNA Sequence

    2. XR_004939572.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BP86.2 GenPept UniProtKB/Swiss-Prot:Q8BP86

    Gene LinkOut

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

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