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

Gene ID: 22700, updated on 2-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 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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