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    Zmat5 zinc finger, matrin type 5 [ Mus musculus (house mouse) ]

    Gene ID: 67178, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Zmat5provided by MGI
    Official Full Name
    zinc finger, matrin type 5provided by MGI
    Primary source
    MGI:MGI:1914428
    See related
    Ensembl:ENSMUSG00000009076 AllianceGenome:MGI:1914428
    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
    D11Bwg0572e; D11Bwg1548e; 2610510L01Rik
    Summary
    Predicted to enable zinc ion binding activity. Predicted to be involved in RNA splicing and mRNA processing. Predicted to be located in nucleoplasm. Predicted to be part of U12-type spliceosomal complex. Is expressed in central nervous system; early conceptus; and genitourinary system. Orthologous to human ZMAT5 (zinc finger matrin-type 5). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in cerebellum adult (RPKM 15.2), bladder adult (RPKM 13.9) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Zmat5 in Genome Data Viewer
    Location:
    11 A1; 11 2.96 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (4654671..4687669)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (4704656..4737669)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E3930 Neighboring gene activating signal cointegrator 1 complex subunit 2 Neighboring gene STARR-seq mESC enhancer starr_28397 Neighboring gene STARR-seq mESC enhancer starr_28398 Neighboring gene STARR-positive B cell enhancer ABC_E2979 Neighboring gene ubiquinol-cytochrome c reductase, complex III subunit X Neighboring gene STARR-seq mESC enhancer starr_28401 Neighboring gene calcium binding protein 7 Neighboring gene predicted gene, 35102 Neighboring gene neurofibromin 2 Neighboring gene STARR-seq mESC enhancer starr_28406 Neighboring gene STARR-seq mESC enhancer starr_28409 Neighboring gene STARR-seq mESC enhancer starr_28411

    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. Assembly, verification, and initial annotation of the NIA mouse 7.4K cDNA clone set. VanBuren V, et al. Genome Res, 2002 Dec. PMID 12466305, Free PMC Article
    2. Genetic mapping of 262 loci derived from expressed sequences in a murine interspecific cross using single-strand conformational polymorphism analysis. Brady KP, et al. Genome Res, 1997 Nov. PMID 9371744, Free PMC Article
    3. A genome-wide screen to identify transcription factors expressed in pelvic Ganglia of the lower urinary tract. Wiese CB, et al. Front Neurosci, 2012. PMID 22988430, Free PMC Article
    4. 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
    5. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article

    See all (25) 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 (3) 

    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

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of U12-type spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U12-type spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U12-type spliceosomal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger matrin-type protein 5
    Names
    U11/U12 small nuclear ribonucleoprotein 20 kDa protein
    U11/U12 snRNP 20 kDa protein

    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_001356390.2 → NP_001343319.1  zinc finger matrin-type protein 5 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AL606521
      Consensus CDS
      CCDS24389.1
      UniProtKB/Swiss-Prot
      Q9CQR5
      Conserved Domains (2) summary
      pfam00642
      Location:55 → 76
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl22907
      Location:4 → 46
      zf-U1; U1 zinc finger

    2. NM_001356391.2 → NP_001343320.1  zinc finger matrin-type protein 5 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and 5' coding region and uses a downstream start codon, compared to variant 1. It encodes isoform 2, which is shorter at the N-terminus, compared to isoform 1.
      Source sequence(s)
      AL606521

    3. NM_026015.4 → NP_080291.1  zinc finger matrin-type protein 5 isoform 1

      See identical proteins and their annotated locations for NP_080291.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AL606521
      Consensus CDS
      CCDS24389.1
      UniProtKB/Swiss-Prot
      Q9CQR5
      Related
      ENSMUSP00000009220.5, ENSMUST00000009220.5
      Conserved Domains (2) summary
      pfam00642
      Location:55 → 76
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl22907
      Location:4 → 46
      zf-U1; U1 zinc finger

    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_000077.7 Reference GRCm39 C57BL/6J

      Range
      4654671..4687669
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006514787.2 → XP_006514850.1  zinc finger matrin-type protein 5 isoform X1

      See identical proteins and their annotated locations for XP_006514850.1

      UniProtKB/Swiss-Prot
      Q9CQR5
      Conserved Domains (2) summary
      pfam00642
      Location:55 → 76
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl22907
      Location:4 → 46
      zf-U1; U1 zinc finger
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9CQR5.1 GenPept UniProtKB/Swiss-Prot:Q9CQR5

    Gene LinkOut

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