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    Zkscan4 zinc finger with KRAB and SCAN domains 4 [ Mus musculus (house mouse) ]

    Gene ID: 544922, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Zkscan4provided by MGI
    Official Full Name
    zinc finger with KRAB and SCAN domains 4provided by MGI
    Primary source
    MGI:MGI:3649412
    See related
    Ensembl:ENSMUSG00000054931 AllianceGenome:MGI:3649412
    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
    Gm11272
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and identical protein binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Orthologous to human ZKSCAN4 (zinc finger with KRAB and SCAN domains 4). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in ovary adult (RPKM 3.3), CNS E18 (RPKM 2.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    13 A3.1; 13 7.82 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (21663019..21669677)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (21478849..21485507)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4930470G03 gene Neighboring gene zinc finger and SCAN domain containing 26 Neighboring gene microRNA 1896 Neighboring gene STARR-positive B cell enhancer ABC_E11532 Neighboring gene NFKB activating protein-like Neighboring gene STARR-seq mESC enhancer starr_33853 Neighboring gene STARR-seq mESC enhancer starr_33854 Neighboring gene predicted gene, 23779 Neighboring gene STARR-seq mESC enhancer starr_33855 Neighboring gene nuclear encoded tRNA serine 2 (anticodon GCT)

    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. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    2. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
    3. The transcriptional landscape of the mammalian genome. Carninci P, et al. Science, 2005 Sep 2. PMID 16141072
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA-binding transcription factor 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
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    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
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein with KRAB and SCAN domains 4

    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_001039115.2 → NP_001034204.1  zinc finger protein with KRAB and SCAN domains 4

      See identical proteins and their annotated locations for NP_001034204.1

      Status: VALIDATED

      Source sequence(s)
      AL589742, AW060540, BU148250, CJ065384
      Consensus CDS
      CCDS26277.1
      UniProtKB/TrEMBL
      A0A286YD55, Q5SZT6
      Related
      ENSMUSP00000054604.6, ENSMUST00000062609.6
      Conserved Domains (6) summary
      smart00431
      Location:47 → 155
      SCAN; leucine rich region
      COG5048
      Location:307 → 471
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:311 → 331
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:309 → 331
      zf-C2H2; Zinc finger, C2H2 type
      pfam02023
      Location:47 → 135
      SCAN; SCAN domain
      pfam13465
      Location:323 → 348
      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_000079.7 Reference GRCm39 C57BL/6J

      Range
      21663019..21669677
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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