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    Zfp40 zinc finger protein 40 [ Mus musculus (house mouse) ]

    Gene ID: 22700, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Zfp40provided by MGI
    Official Full Name
    zinc finger protein 40provided by MGI
    Primary source
    MGI:MGI:99185
    See related
    Ensembl:ENSMUSG00000002617 AllianceGenome:MGI:99185
    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
    Zfp-40; CTfin12; NTfin12
    Summary
    Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; embryo mesoderm; genitourinary system; peripheral nervous system ganglion; and primitive streak. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in CNS E18 (RPKM 3.0), CNS E14 (RPKM 1.9) and 16 other tissues See more
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    Genomic context

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    See Zfp40 in Genome Data Viewer
    Location:
    17 A3.3; 17 11.56 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (23392843..23412226, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (23173869..23193284, complement)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene vomeronasal 2, receptor, pseudogene 132 Neighboring gene cytochrome b-c1 complex subunit 7 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E116 Neighboring gene STARR-positive B cell enhancer mm9_chr17:23331814-23332114 Neighboring gene vomeronasal 2, receptor, pseudogene 133 Neighboring gene vomeronasal 2, receptor 114

    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. Molecular characterization of Zfp54, a zinc-finger-containing gene that is deleted in the embryonic lethal mutation tw18. Shannon M, et al. Mamm Genome, 1999 Jul. PMID 10384051
    2. A novel murine zinc finger gene mapped within the tw18 deletion region expresses in germ cells and embryonic nervous system. Noce T, et al. Dev Biol, 1993 Feb. PMID 8432396
    3. Expression of a mouse zinc finger protein gene in both spermatocytes and oocytes during meiosis. Noce T, et al. Dev Biol, 1992 Oct. PMID 1397691
    4. Physical analysis of the region deleted in the tw18 allele of the mouse tcl-4 complementation group. Barclay J, et al. Genomics, 1996 Aug 15. PMID 8812414
    5. Quantitative trait loci affecting methamphetamine responses in BXD recombinant inbred mouse strains. Grisel JE, et al. J Neurosci, 1997 Jan 15. PMID 8987796, Free PMC Article

    See all (24) 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)
    • Targeted (2) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein 40

    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_001357697.1 → NP_001344626.1  zinc finger protein 40 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC151285, BC065097, CT030648
      Consensus CDS
      CCDS37473.1
      UniProtKB/TrEMBL
      B1B1D3
      Conserved Domains (4) summary
      COG5048
      Location:279 → 677
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:644 → 664
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:42 → 82
      KRAB; KRAB box
      pfam13465
      Location:684 → 709
      zf-H2C2_2; Zinc-finger double domain

    2. NM_001414257.1 → NP_001401186.1  zinc finger protein 40 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC151285, CT030648

    3. NM_001414258.1 → NP_001401187.1  zinc finger protein 40 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC151285, CT030648
      UniProtKB/TrEMBL
      G3UVW7
      Related
      ENSMUSP00000121359.2, ENSMUST00000140313.8

    4. NM_001414259.1 → NP_001401188.1  zinc finger protein 40 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC151285, CT030648

    5. NM_001414260.1 → NP_001401189.1  zinc finger protein 40 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC151285, CT030648
      UniProtKB/TrEMBL
      G3UVW7

    6. NM_001414261.1 → NP_001401190.1  zinc finger protein 40 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC151285, CT030648

    7. NM_009555.3 → NP_033581.2  zinc finger protein 40 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC151285, CT030648
      Consensus CDS
      CCDS37473.1
      UniProtKB/TrEMBL
      B1B1D3
      Related
      ENSMUSP00000039794.8, ENSMUST00000037057.14
      Conserved Domains (4) summary
      COG5048
      Location:279 → 677
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:644 → 664
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:42 → 82
      KRAB; KRAB box
      pfam13465
      Location:684 → 709
      zf-H2C2_2; Zinc-finger double domain

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      23392843..23412226 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030249753.2 → XP_030105613.1  zinc finger protein 40 isoform X2

      Conserved Domains (4) summary
      COG5048
      Location:270 → 668
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:635 → 655
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:33 → 73
      KRAB; KRAB box
      pfam13465
      Location:675 → 700
      zf-H2C2_2; Zinc-finger double domain
    Nucleotide Protein Strain
    Heading Accession and Version

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