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

Gene ID: 272347, updated on 8-Feb-2024

Summary

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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 repressor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. 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, Apr 2022]
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

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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

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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. Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst. Guo G, et al. Dev Cell, 2010 Apr 20. PMID 20412781
  2. An atlas of combinatorial transcriptional regulation in mouse and man. Ravasi T, et al. Cell, 2010 Mar 5. PMID 20211142, Free PMC Article
  3. A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Yokoyama S, et al. Dev Cell, 2009 Dec. PMID 20059953, Free PMC Article
  4. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, et al. Science, 2004 Dec 24. PMID 15618518
  5. GUDMAP: the genitourinary developmental molecular anatomy project. McMahon AP, et al. J Am Soc Nephrol, 2008 Apr. PMID 18287559

See all (19) 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)
  • Endonuclease-mediated (3) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • 6430539K21

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 transcription 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 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_027477.3 → NP_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:143 → 182
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    smart00349
    Location:143 → 203
    KRAB; krueppel associated box
    COG5048
    Location:368 → 588
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:486 → 506
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:540 → 562
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:554 → 579
    zf-H2C2_2; Zinc-finger double domain

  2. NM_173034.3 → NP_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:11 → 71
    KRAB; krueppel associated box
    COG5048
    Location:236 → 456
    COG5048; FOG: Zn-finger [General function prediction only]
    PRK05580
    Location:211 → 244
    PRK05580; primosome assembly protein PriA; Validated
    sd00017
    Location:354 → 374
    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_030255435.1 → XP_030111295.1  zinc finger protein 398 isoform X1

    UniProtKB/TrEMBL
    Q8BVH0
    Conserved Domains (4) summary
    smart00349
    Location:14 → 74
    KRAB; krueppel associated box
    COG5048
    Location:239 → 459
    COG5048; FOG: Zn-finger [General function prediction only]
    PRK05580
    Location:214 → 247
    PRK05580; primosome assembly protein PriA; Validated
    sd00017
    Location:357 → 377
    ZF_C2H2; C2H2 Zn finger [structural motif]

  2. XM_006506208.4 → XP_006506271.1  zinc finger protein 398 isoform X2

    UniProtKB/TrEMBL
    Q8BVH0
    Conserved Domains (3) summary
    COG5048
    Location:197 → 417
    COG5048; FOG: Zn-finger [General function prediction only]
    PRK05580
    Location:172 → 205
    PRK05580; primosome assembly protein PriA; Validated
    sd00017
    Location:315 → 335
    ZF_C2H2; C2H2 Zn finger [structural motif]
Nucleotide Protein Strain
Heading Accession and Version

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