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

Gene ID: 80744, updated on 6-Jun-2024

Summary

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 act upstream of or within RNA splicing and mRNA processing. 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, Apr 2022]
Expression
Broad expression in CNS E11.5 (RPKM 12.6), liver E14 (RPKM 8.0) and 22 other tissues See more
Orthologs
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Genomic context

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

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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
 
Process Evidence Code Pubs
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
 
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
 
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 2 spliceosome ISO
Inferred from Sequence Orthology
more info
 
part_of U2-type precatalytic spliceosome ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of spliceosomal complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

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

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001290740.3NP_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:163344
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    PRK12678
    Location:722895
    PRK12678; transcription termination factor Rho; Provisional
    TIGR01642
    Location:9168
    U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    pfam02847
    Location:455561
    MA3; MA3 domain
  2. NM_001362657.3NP_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:163344
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    PRK12678
    Location:717902
    PRK12678; transcription termination factor Rho; Provisional
    TIGR01642
    Location:9168
    U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    pfam02847
    Location:455561
    MA3; MA3 domain
  3. NM_001362658.3NP_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:162343
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    PRK12678
    Location:716901
    PRK12678; transcription termination factor Rho; Provisional
    TIGR01642
    Location:9167
    U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    pfam02847
    Location:454560
    MA3; MA3 domain
  4. NM_001362659.3NP_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:162343
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    PRK12678
    Location:721894
    PRK12678; transcription termination factor Rho; Provisional
    TIGR01642
    Location:9167
    U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    pfam02847
    Location:454560
    MA3; MA3 domain
  5. NM_001362664.3NP_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:162343
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    cl02653
    Location:454560
    MA3; MA3 domain
    cl25887
    Location:9167
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
  6. NM_001421935.1NP_001408864.1  pre-mRNA-splicing factor CWC22 homolog isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL928791, AL928915
    UniProtKB/TrEMBL
    Q6ZPL7
  7. NM_001421937.1NP_001408866.1  pre-mRNA-splicing factor CWC22 homolog isoform 6

    Status: VALIDATED

    Source sequence(s)
    AL928791, AL928915
    UniProtKB/TrEMBL
    Q6ZPL7
  8. NM_001421938.1NP_001408867.1  pre-mRNA-splicing factor CWC22 homolog isoform 7

    Status: VALIDATED

    Source sequence(s)
    AL928791, AL928915
    UniProtKB/TrEMBL
    Q6ZPL7
  9. NM_001421939.1NP_001408868.1  pre-mRNA-splicing factor CWC22 homolog isoform 3

    Status: VALIDATED

    Source sequence(s)
    AL928791, AL928915
    UniProtKB/TrEMBL
    B1AYU7, Q6ZPL7
  10. NM_001421940.1NP_001408869.1  pre-mRNA-splicing factor CWC22 homolog isoform 3

    Status: VALIDATED

    Source sequence(s)
    AL928791, AL928915
    UniProtKB/TrEMBL
    B1AYU7, Q6ZPL7
  11. NM_001421941.1NP_001408870.1  pre-mRNA-splicing factor CWC22 homolog isoform 8

    Status: VALIDATED

    Source sequence(s)
    AL928791, AL928915
    UniProtKB/TrEMBL
    Q6ZPL7
  12. NM_001421942.1NP_001408871.1  pre-mRNA-splicing factor CWC22 homolog isoform 9

    Status: VALIDATED

    Source sequence(s)
    AL928791, AL928915
    UniProtKB/TrEMBL
    Q6ZPL7
  13. NM_001421943.1NP_001408872.1  pre-mRNA-splicing factor CWC22 homolog isoform 10

    Status: VALIDATED

    Source sequence(s)
    AL928791, AL928915
    UniProtKB/TrEMBL
    Q6ZPL7
  14. NM_001421944.1NP_001408873.1  pre-mRNA-splicing factor CWC22 homolog isoform 11

    Status: VALIDATED

    Source sequence(s)
    AL928791, AL928915
  15. NM_001421945.1NP_001408874.1  pre-mRNA-splicing factor CWC22 homolog isoform 11

    Status: VALIDATED

    Source sequence(s)
    AL928791, AL928915
  16. NM_001421946.1NP_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_030560.7NP_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:162343
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    PRK12678
    Location:716901
    PRK12678; transcription termination factor Rho; Provisional
    TIGR01642
    Location:9167
    U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    pfam02847
    Location:454560
    MA3; MA3 domain
  18. NM_172667.4NP_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:162343
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    PRK12678
    Location:721894
    PRK12678; transcription termination factor Rho; Provisional
    TIGR01642
    Location:9167
    U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    pfam02847
    Location:454560
    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_036162730.1XP_036018623.1  pre-mRNA-splicing factor CWC22 homolog isoform X4

    UniProtKB/TrEMBL
    Q6ZPL7
    Conserved Domains (4) summary
    smart00543
    Location:162343
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    PRK12678
    Location:721894
    PRK12678; transcription termination factor Rho; Provisional
    TIGR01642
    Location:9167
    U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    pfam02847
    Location:454560
    MA3; MA3 domain
  2. XM_036162729.1XP_036018622.1  pre-mRNA-splicing factor CWC22 homolog isoform X3

    UniProtKB/TrEMBL
    B1AYU7, Q6ZPL7
    Conserved Domains (4) summary
    smart00543
    Location:163344
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    PRK12678
    Location:722895
    PRK12678; transcription termination factor Rho; Provisional
    TIGR01642
    Location:9168
    U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    pfam02847
    Location:455561
    MA3; MA3 domain
  3. XM_030252257.2XP_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:162343
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    PRK12678
    Location:716901
    PRK12678; transcription termination factor Rho; Provisional
    TIGR01642
    Location:9167
    U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    pfam02847
    Location:454560
    MA3; MA3 domain
  4. XM_006500435.5XP_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:163344
    MIF4G; Middle domain of eukaryotic initiation factor 4G (eIF4G)
    PRK12678
    Location:717902
    PRK12678; transcription termination factor Rho; Provisional
    TIGR01642
    Location:9168
    U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    pfam02847
    Location:455561
    MA3; MA3 domain

RNA

  1. XR_004940784.1 RNA Sequence

  2. XR_004940783.1 RNA Sequence