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

Gene ID: 67178, updated on 28-Oct-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, Oct 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 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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