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    Cwc22 CWC22 spliceosome-associated protein [ Mus musculus (house mouse) ]

    Gene ID: 80744, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Cwc22provided by MGI
    Official Full Name
    CWC22 spliceosome-associated proteinprovided by MGI
    Primary source
    MGI:MGI:2136773
    See related
    Ensembl:ENSMUSG00000027014 AllianceGenome:MGI:2136773
    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
    mKIAA1604; B230213M24
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in cytosol and nuclear speck. Predicted to be part of U2-type catalytic step 1 spliceosome; U2-type catalytic step 2 spliceosome; and U2-type precatalytic spliceosome. Is expressed in embryo. Orthologous to human CWC22 (CWC22 spliceosome associated protein homolog). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in CNS E11.5 (RPKM 12.6), liver E14 (RPKM 8.0) and 22 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Cwc22 in Genome Data Viewer
    Location:
    2 C3; 2 46.45 cM
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (77706312..77776705, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (77881159..77946356, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene zinc finger protein 385B Neighboring gene predicted gene, 17927 Neighboring gene STARR-seq mESC enhancer starr_04915 Neighboring gene STARR-seq mESC enhancer starr_04916 Neighboring gene predicted gene, 35431 Neighboring gene STARR-seq mESC enhancer starr_04917 Neighboring gene STARR-positive B cell enhancer ABC_E10118 Neighboring gene ribosomal protein L7A pseudogene Neighboring gene RIKEN cDNA 4930440I19 gene Neighboring gene predicted gene, 52519

    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. Diabetic polyneuropathy, sensory neurons, nuclear structure and spliceosome alterations: a role for CWC22. Kobayashi M, et al. Dis Model Mech, 2017 Mar 1. PMID 28250049, Free PMC Article
    2. The Evolutionary Fates of a Large Segmental Duplication in Mouse. Morgan AP, et al. Genetics, 2016 Sep. PMID 27371833, Free PMC Article
    3. CWC22-Mediated Alternative Splicing of Spp1 Regulates Nociception in Inflammatory Pain. Song Y, et al. Neuroscience, 2023 Dec 15. PMID 37838283
    4. Divergence patterns of genic copy number variation in natural populations of the house mouse (Mus musculus domesticus) reveal three conserved genes with major population-specific expansions. Pezer Ž, et al. Genome Res, 2015 Aug. PMID 26149421, Free PMC Article
    5. Insm1 promotes endocrine cell differentiation by modulating the expression of a network of genes that includes Neurog3 and Ripply3. Osipovich AB, et al. Development, 2014 Aug. PMID 25053427, Free PMC Article

    See all (31) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CWC22-Mediated Alternative Splicing of Spp1 Regulates Nociception in Inflammatory Pain.
      Title: CWC22-Mediated Alternative Splicing of Spp1 Regulates Nociception in Inflammatory Pain.
    2. These findings identify subtle but significant alterations in spliceosome structure and function, including dysregulated Cajal bodies and CWC22 overexpression, in diabetic sensory neurons that offer new ideas regarding diabetic sensory neurodegeneration in polyneuropathy.
      Title: Diabetic polyneuropathy, sensory neurons, nuclear structure and spliceosome alterations: a role for CWC22.
    3. Authors have reconstructed the origin and history of a 127-kbp segmental duplication, R2d, in the house mouse (Mus musculus). R2d contains a single protein-coding gene, Cwc22 De novo assembly of both the ancestral (R2d1) and the derived (R2d2) copies reveals that they have been subject to nonallelic gene conversion events spanning tens of kilobases.
      Title: The Evolutionary Fates of a Large Segmental Duplication in Mouse.
    4. Study showed major differences in gene copy number in natural populations. CWC22, SFI1, and HJURP are highly conserved genes with the most copy-number variation. They all exhibit population-specific expansion patterns, perhaps for local adaptations.
      Title: Divergence patterns of genic copy number variation in natural populations of the house mouse (Mus musculus domesticus) reveal three conserved genes with major population-specific expansions.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    Homology

    Clone Names

    • MGC7531, MGC107219, MGC107450

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of U2-type catalytic step 1 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type catalytic step 1 spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of U2-type catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type catalytic step 2 spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of U2-type precatalytic spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type precatalytic spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of spliceosomal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    pre-mRNA-splicing factor CWC22 homolog
    Names
    CWC22 spliceosome-associated protein homolog
    nucampholin homolog

    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_001290740.3 → NP_001277669.1  pre-mRNA-splicing factor CWC22 homolog isoform 3

      See identical proteins and their annotated locations for NP_001277669.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 4. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 4. Variants 3, 11, and 12 all encode the same isoform (3).
      Source sequence(s)
      AL928791, AL928915
      Consensus CDS
      CCDS71080.1
      UniProtKB/TrEMBL
      B1AYU7, Q6ZPL7
      Related
      ENSMUSP00000107450.2, ENSMUST00000111819.8
      Conserved Domains (4) summary
      smart00543
      Location:163 → 344
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      PRK12678
      Location:722 → 895
      PRK12678; transcription termination factor Rho; Provisional
      TIGR01642
      Location:9 → 168
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam02847
      Location:455 → 561
      MA3; MA3 domain

    2. NM_001362657.3 → NP_001349586.1  pre-mRNA-splicing factor CWC22 homolog isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) encodes the longest isoform (4).
      Source sequence(s)
      AL928791, AL928915
      UniProtKB/TrEMBL
      Q6ZPL7
      Conserved Domains (4) summary
      smart00543
      Location:163 → 344
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      PRK12678
      Location:717 → 902
      PRK12678; transcription termination factor Rho; Provisional
      TIGR01642
      Location:9 → 168
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam02847
      Location:455 → 561
      MA3; MA3 domain

    3. NM_001362658.3 → NP_001349587.1  pre-mRNA-splicing factor CWC22 homolog isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) uses an alternate in-frame splice junction compared to variant 4. The resulting isoform (1) has the same N- and C-termini but is 1 aa shorter compared to isoform 4. Variants 1 and 5 both encode the same isoform (1).
      Source sequence(s)
      AL928791, AL928915
      Consensus CDS
      CCDS16165.1
      UniProtKB/Swiss-Prot
      Q3UEH0, Q3V267, Q8BR58, Q8C5N3, Q99KV6
      UniProtKB/TrEMBL
      Q6ZPL7
      Related
      ENSMUSP00000107452.3, ENSMUST00000111821.9
      Conserved Domains (4) summary
      smart00543
      Location:162 → 343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      PRK12678
      Location:716 → 901
      PRK12678; transcription termination factor Rho; Provisional
      TIGR01642
      Location:9 → 167
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam02847
      Location:454 → 560
      MA3; MA3 domain

    4. NM_001362659.3 → NP_001349588.1  pre-mRNA-splicing factor CWC22 homolog isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR and uses two alternate in-frame splice junctions compared to variant 4. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 4. Variants 2 and 6 both encode the same isoform (2).
      Source sequence(s)
      AL928791, AL928915
      Consensus CDS
      CCDS57178.1
      UniProtKB/TrEMBL
      Q6ZPL7
      Conserved Domains (4) summary
      smart00543
      Location:162 → 343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      PRK12678
      Location:721 → 894
      PRK12678; transcription termination factor Rho; Provisional
      TIGR01642
      Location:9 → 167
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam02847
      Location:454 → 560
      MA3; MA3 domain

    5. NM_001362664.3 → NP_001349593.1  pre-mRNA-splicing factor CWC22 homolog isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) differs in the 3' UTR and coding sequence and uses two alternate in-frame splice junctions compared to isoform 4. The resulting isoform (5) lacks an alternate internal aa and has a shorter and distinct C-terminus compared to isoform 4.
      Source sequence(s)
      AL928791, AL928915
      Consensus CDS
      CCDS89500.1
      UniProtKB/TrEMBL
      A2AK42, A2AK44, B1AYU4
      Related
      ENSMUSP00000107455.2, ENSMUST00000111824.8
      Conserved Domains (3) summary
      smart00543
      Location:162 → 343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      cl02653
      Location:454 → 560
      MA3; MA3 domain
      cl25887
      Location:9 → 167
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

    6. NM_001421935.1 → NP_001408864.1  pre-mRNA-splicing factor CWC22 homolog isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915

    7. NM_001421937.1 → NP_001408866.1  pre-mRNA-splicing factor CWC22 homolog isoform 6

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915

    8. NM_001421938.1 → NP_001408867.1  pre-mRNA-splicing factor CWC22 homolog isoform 7

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915

    9. NM_001421939.1 → NP_001408868.1  pre-mRNA-splicing factor CWC22 homolog isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915
      UniProtKB/TrEMBL
      B1AYU7

    10. NM_001421940.1 → NP_001408869.1  pre-mRNA-splicing factor CWC22 homolog isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915
      UniProtKB/TrEMBL
      B1AYU7

    11. NM_001421941.1 → NP_001408870.1  pre-mRNA-splicing factor CWC22 homolog isoform 8

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915

    12. NM_001421942.1 → NP_001408871.1  pre-mRNA-splicing factor CWC22 homolog isoform 9

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915

    13. NM_001421943.1 → NP_001408872.1  pre-mRNA-splicing factor CWC22 homolog isoform 10

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915

    14. NM_001421944.1 → NP_001408873.1  pre-mRNA-splicing factor CWC22 homolog isoform 11

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915

    15. NM_001421945.1 → NP_001408874.1  pre-mRNA-splicing factor CWC22 homolog isoform 11

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915

    16. NM_001421946.1 → NP_001408875.1  pre-mRNA-splicing factor CWC22 homolog isoform 12

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915
      UniProtKB/TrEMBL
      Q8BKP8
      Related
      ENSMUST00000127351.8

    17. NM_030560.7 → NP_085037.2  pre-mRNA-splicing factor CWC22 homolog isoform 1

      See identical proteins and their annotated locations for NP_085037.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) differs in the 5' UTR and uses an alternate in-frame splice junction compared to variant 4. The resulting isoform (1) has the same N- and C-termini but is 1 aa shorter compared to isoform 4. Variants 1 and 5 both encode the same isoform (1).
      Source sequence(s)
      AL928791, AL928915
      Consensus CDS
      CCDS16165.1
      UniProtKB/Swiss-Prot
      Q3UEH0, Q3V267, Q8BR58, Q8C5N3, Q99KV6
      UniProtKB/TrEMBL
      Q6ZPL7
      Related
      ENSMUSP00000064947.4, ENSMUST00000065889.10
      Conserved Domains (4) summary
      smart00543
      Location:162 → 343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      PRK12678
      Location:716 → 901
      PRK12678; transcription termination factor Rho; Provisional
      TIGR01642
      Location:9 → 167
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam02847
      Location:454 → 560
      MA3; MA3 domain

    18. NM_172667.4 → NP_766255.1  pre-mRNA-splicing factor CWC22 homolog isoform 2

      See identical proteins and their annotated locations for NP_766255.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses two alternate in-frame splice junctions compared to variant 4. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 4. Variants 2 and 6 both encode the same isoform (2).
      Source sequence(s)
      AL928791, AL928915
      Consensus CDS
      CCDS57178.1
      UniProtKB/TrEMBL
      Q6ZPL7
      Related
      ENSMUSP00000107449.2, ENSMUST00000111818.8
      Conserved Domains (4) summary
      smart00543
      Location:162 → 343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      PRK12678
      Location:721 → 894
      PRK12678; transcription termination factor Rho; Provisional
      TIGR01642
      Location:9 → 167
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam02847
      Location:454 → 560
      MA3; MA3 domain

    RNA

    1. NR_185472.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL928791, AL928915

    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
      77706312..77776705 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036162730.1 → XP_036018623.1  pre-mRNA-splicing factor CWC22 homolog isoform X4

      UniProtKB/TrEMBL
      Q6ZPL7
      Conserved Domains (4) summary
      smart00543
      Location:162 → 343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      PRK12678
      Location:721 → 894
      PRK12678; transcription termination factor Rho; Provisional
      TIGR01642
      Location:9 → 167
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam02847
      Location:454 → 560
      MA3; MA3 domain

    2. XM_036162729.1 → XP_036018622.1  pre-mRNA-splicing factor CWC22 homolog isoform X3

      UniProtKB/TrEMBL
      B1AYU7, Q6ZPL7
      Conserved Domains (4) summary
      smart00543
      Location:163 → 344
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      PRK12678
      Location:722 → 895
      PRK12678; transcription termination factor Rho; Provisional
      TIGR01642
      Location:9 → 168
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam02847
      Location:455 → 561
      MA3; MA3 domain

    3. XM_030252257.2 → XP_030108117.1  pre-mRNA-splicing factor CWC22 homolog isoform X2

      UniProtKB/Swiss-Prot
      Q3UEH0, Q3V267, Q8BR58, Q8C5N3, Q99KV6
      UniProtKB/TrEMBL
      Q6ZPL7
      Conserved Domains (4) summary
      smart00543
      Location:162 → 343
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      PRK12678
      Location:716 → 901
      PRK12678; transcription termination factor Rho; Provisional
      TIGR01642
      Location:9 → 167
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam02847
      Location:454 → 560
      MA3; MA3 domain

    4. XM_006500435.5 → XP_006500498.1  pre-mRNA-splicing factor CWC22 homolog isoform X1

      See identical proteins and their annotated locations for XP_006500498.1

      UniProtKB/TrEMBL
      Q6ZPL7
      Conserved Domains (4) summary
      smart00543
      Location:163 → 344
      MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
      PRK12678
      Location:717 → 902
      PRK12678; transcription termination factor Rho; Provisional
      TIGR01642
      Location:9 → 168
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam02847
      Location:455 → 561
      MA3; MA3 domain

    RNA

    1. XR_004940784.1 RNA Sequence

    2. XR_004940783.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C5N3.1 GenPept UniProtKB/Swiss-Prot:Q8C5N3

    Gene LinkOut

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

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