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    Zfp398 zinc finger protein 398 [ Mus musculus (house mouse) ]

    Gene ID: 272347, updated on 9-Dec-2024

    Summary

    Official Symbol
    Zfp398provided by MGI
    Official Full Name
    zinc finger protein 398provided by MGI
    Primary source
    MGI:MGI:1917856
    See related
    Ensembl:ENSMUSG00000062519 AllianceGenome:MGI:1917856
    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
    5730513I23Rik
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription 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 branchial arch; central nervous system; early conceptus; genitourinary system; and sensory organ. Orthologous to human ZNF398 (zinc finger protein 398). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in ovary adult (RPKM 4.0), thymus adult (RPKM 3.6) and 28 other tissues See more
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    Genomic context

    See Zfp398 in Genome Data Viewer
    Location:
    6 B2.3; 6 22.94 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (47812567..47850476)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (47835633..47873542)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene protein disulfide isomerase associated 4 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:47763598-47763839 Neighboring gene microRNA 704 Neighboring gene ribosomal protein L35A, pseudogene 7 Neighboring gene STARR-seq mESC enhancer starr_15785 Neighboring gene zinc finger protein 786 Neighboring gene zinc finger protein 282 Neighboring gene predicted gene, 52899 Neighboring gene Zinc finger protein 212

    Genomic regions, transcripts, and products

    Expression

    • 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

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • 6430539K21

    Gene Ontology Provided by MGI

    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
     

    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_027477.3NP_081753.1  zinc finger protein 398 isoform 1

      See identical proteins and their annotated locations for NP_081753.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK046208, AK078250, AK081169, BB066614
      Consensus CDS
      CCDS20099.1
      UniProtKB/TrEMBL
      Q14DQ6, Q8BV16
      Related
      ENSMUSP00000078806.5, ENSMUST00000079881.11
      Conserved Domains (6) summary
      cd07765
      Location:143182
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      smart00349
      Location:143203
      KRAB; krueppel associated box
      COG5048
      Location:368588
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:486506
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:540562
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:554579
      zf-H2C2_2; Zinc-finger double domain
    2. NM_173034.3NP_766622.2  zinc finger protein 398 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. It encodes isoform 2, which lacks an internal segment and is shorter, compared to isoform 1.
      Source sequence(s)
      AK046208, AK078250, BB066614, BB640605
      Consensus CDS
      CCDS39476.1
      UniProtKB/TrEMBL
      E9Q569, Q8BVH0
      Related
      ENSMUSP00000110245.2, ENSMUST00000114598.3
      Conserved Domains (4) summary
      smart00349
      Location:1171
      KRAB; krueppel associated box
      COG5048
      Location:236456
      COG5048; FOG: Zn-finger [General function prediction only]
      PRK05580
      Location:211244
      PRK05580; primosome assembly protein PriA; Validated
      sd00017
      Location:354374
      ZF_C2H2; C2H2 Zn finger [structural motif]

    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_000072.7 Reference GRCm39 C57BL/6J

      Range
      47812567..47850476
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030255435.1XP_030111295.1  zinc finger protein 398 isoform X1

      UniProtKB/TrEMBL
      Q8BVH0
      Conserved Domains (4) summary
      smart00349
      Location:1474
      KRAB; krueppel associated box
      COG5048
      Location:239459
      COG5048; FOG: Zn-finger [General function prediction only]
      PRK05580
      Location:214247
      PRK05580; primosome assembly protein PriA; Validated
      sd00017
      Location:357377
      ZF_C2H2; C2H2 Zn finger [structural motif]
    2. XM_006506208.4XP_006506271.1  zinc finger protein 398 isoform X2

      UniProtKB/TrEMBL
      Q8BVH0
      Conserved Domains (3) summary
      COG5048
      Location:197417
      COG5048; FOG: Zn-finger [General function prediction only]
      PRK05580
      Location:172205
      PRK05580; primosome assembly protein PriA; Validated
      sd00017
      Location:315335
      ZF_C2H2; C2H2 Zn finger [structural motif]