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    Zfp398 zinc finger protein 398 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500108, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Zfp398provided by RGD
    Official Full Name
    zinc finger protein 398provided by RGD
    Primary source
    RGD:1562129
    See related
    EnsemblRapid:ENSRNOG00000006703 AllianceGenome:RGD:1562129
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1562129
    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. Orthologous to human ZNF398 (zinc finger protein 398). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 60.7), Brain (RPKM 56.3) and 9 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Zfp398 in Genome Data Viewer
    Location:
    4q24
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (78180620..78214367)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (76849672..76881075)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (77519018..77546517)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene protein disulfide isomerase family A, member 4 Neighboring gene zinc finger protein 786 Neighboring gene uncharacterized LOC134486577 Neighboring gene zinc finger protein 282 Neighboring gene Zinc finger protein 212

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    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 transcription regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    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 398

    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_001109230.1 → NP_001102700.1  zinc finger protein 398

      See identical proteins and their annotated locations for NP_001102700.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474011
      UniProtKB/TrEMBL
      A6K0D2, D3ZGH2
      Related
      ENSRNOP00000008743.5, ENSRNOT00000008743.8
      Conserved Domains (3) summary
      smart00349
      Location:143 → 203
      KRAB; krueppel associated box
      COG5048
      Location:344 → 588
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:486 → 506
      ZF_C2H2; C2H2 Zn finger [structural motif]

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      78180620..78214367
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063286507.1 → XP_063142577.1  zinc finger protein 398 isoform X1

      UniProtKB/TrEMBL
      A0A8I6A350

    2. XM_008762904.4 → XP_008761126.1  zinc finger protein 398 isoform X2

      UniProtKB/TrEMBL
      A0A8I6ACN4
      Related
      ENSRNOP00000085340.2, ENSRNOT00000103136.2
      Conserved Domains (6) summary
      cd07765
      Location:11 → 50
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      smart00349
      Location:11 → 71
      KRAB; krueppel associated box
      COG5048
      Location:212 → 456
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:354 → 374
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:408 → 430
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:422 → 447
      zf-H2C2_2; Zinc-finger double domain

    3. XM_039108122.2 → XP_038964050.1  zinc finger protein 398 isoform X4

      Conserved Domains (2) summary
      COG5048
      Location:173 → 417
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:315 → 335
      ZF_C2H2; C2H2 Zn finger [structural motif]

    4. XM_008762905.4 → XP_008761127.1  zinc finger protein 398 isoform X3

      Conserved Domains (6) summary
      cd07765
      Location:4 → 43
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      smart00349
      Location:4 → 64
      KRAB; krueppel associated box
      COG5048
      Location:205 → 449
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:347 → 367
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:401 → 423
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:415 → 440
      zf-H2C2_2; Zinc-finger double domain
    Nucleotide Protein Strain
    Heading Accession and Version

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