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    Zfp558 zinc finger protein 558 [ Mus musculus (house mouse) ]

    Gene ID: 72230, updated on 30-Apr-2024

    Summary

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    Official Symbol
    Zfp558provided by MGI
    Official Full Name
    zinc finger protein 558provided by MGI
    Primary source
    MGI:MGI:1921681
    See related
    Ensembl:ENSMUSG00000074500 AllianceGenome:MGI:1921681
    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
    Zfp558-ps; 1700007A21Rik; 4932704I17Rik
    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 integumental system and nervous system. Orthologous to several human genes including ZNF558 (zinc finger protein 558). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in whole brain E14.5 (RPKM 7.4), CNS E18 (RPKM 7.1) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Zfp558 in Genome Data Viewer
    Location:
    9 A2; 9 7.05 cM
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (18359983..18389597, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (18453558..18478301, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_23418 Neighboring gene microtubule-associated protein 1 light chain 3 pseudogene Neighboring gene methyl-CpG binding domain protein 3-like 2 Neighboring gene STARR-seq mESC enhancer starr_23419 Neighboring gene STARR-seq mESC enhancer starr_23420 Neighboring gene methyl-CpG binding domain protein 3-like 1 Neighboring gene mucin 16 Neighboring gene predicted gene, 39297

    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. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, et al. Science, 2004 Dec 24. PMID 15618518
    2. GUDMAP: the genitourinary developmental molecular anatomy project. McMahon AP, et al. J Am Soc Nephrol, 2008 Apr. PMID 18287559
    3. GenePaint.org: an atlas of gene expression patterns in the mouse embryo. Visel A, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681479, Free PMC Article
    4. 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
    5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

    See all (13) 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 (1) 

    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 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 558
    Names
    zinc finger protein 558, pseudogene

    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_028160.1 → NP_082436.1  zinc finger protein 558

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1.
      Source sequence(s)
      AC162941
      Consensus CDS
      CCDS52729.1
      UniProtKB/TrEMBL
      E9Q1J0
      Conserved Domains (3) summary
      smart00349
      Location:43 → 100
      KRAB; krueppel associated box
      COG5048
      Location:125 → 403
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:299 → 319
      ZF_C2H2; C2H2 Zn finger [structural motif]

    2. NM_028935.1 → NP_083211.1  zinc finger protein 558

      See identical proteins and their annotated locations for NP_083211.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AC162941, AK005691, BC048749, CF741986
      Consensus CDS
      CCDS52729.1
      UniProtKB/TrEMBL
      E9Q1J0
      Related
      ENSMUSP00000132305.2, ENSMUST00000034647.11
      Conserved Domains (3) summary
      smart00349
      Location:43 → 100
      KRAB; krueppel associated box
      COG5048
      Location:125 → 403
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:299 → 319
      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_000075.7 Reference GRCm39 C57BL/6J

      Range
      18359983..18389597 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030244630.2 → XP_030100490.1  zinc finger protein 558 isoform X3

      UniProtKB/TrEMBL
      Q9DAN2
      Conserved Domains (3) summary
      COG5048
      Location:110 → 251
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:147 → 167
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:18 → 43
      zf-H2C2_2; Zinc-finger double domain

    2. XM_017313604.2 → XP_017169093.1  zinc finger protein 558 isoform X1

      UniProtKB/TrEMBL
      E9Q1J0
      Conserved Domains (3) summary
      smart00349
      Location:43 → 100
      KRAB; krueppel associated box
      COG5048
      Location:125 → 403
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:299 → 319
      ZF_C2H2; C2H2 Zn finger [structural motif]

    3. XM_011242609.2 → XP_011240911.1  zinc finger protein 558 isoform X1

      See identical proteins and their annotated locations for XP_011240911.1

      UniProtKB/TrEMBL
      E9Q1J0
      Conserved Domains (3) summary
      smart00349
      Location:43 → 100
      KRAB; krueppel associated box
      COG5048
      Location:125 → 403
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:299 → 319
      ZF_C2H2; C2H2 Zn finger [structural motif]

    4. XM_017313603.2 → XP_017169092.1  zinc finger protein 558 isoform X1

      UniProtKB/TrEMBL
      E9Q1J0
      Conserved Domains (3) summary
      smart00349
      Location:43 → 100
      KRAB; krueppel associated box
      COG5048
      Location:125 → 403
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:299 → 319
      ZF_C2H2; C2H2 Zn finger [structural motif]

    5. XM_036155311.1 → XP_036011204.1  zinc finger protein 558 isoform X3

      UniProtKB/TrEMBL
      Q9DAN2
      Conserved Domains (3) summary
      COG5048
      Location:110 → 251
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:147 → 167
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:18 → 43
      zf-H2C2_2; Zinc-finger double domain

    6. XM_036155313.1 → XP_036011206.1  zinc finger protein 558 isoform X3

      UniProtKB/TrEMBL
      Q9DAN2
      Conserved Domains (3) summary
      COG5048
      Location:110 → 251
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:147 → 167
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:18 → 43
      zf-H2C2_2; Zinc-finger double domain

    7. XM_011242610.4 → XP_011240912.1  zinc finger protein 558 isoform X2

      Conserved Domains (3) summary
      smart00349
      Location:19 → 76
      KRAB; krueppel associated box
      COG5048
      Location:101 → 379
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:275 → 295
      ZF_C2H2; C2H2 Zn finger [structural motif]

    8. XM_030244628.2 → XP_030100488.1  zinc finger protein 558 isoform X3

      UniProtKB/TrEMBL
      Q9DAN2
      Conserved Domains (3) summary
      COG5048
      Location:110 → 251
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:147 → 167
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:18 → 43
      zf-H2C2_2; Zinc-finger double domain

    9. XM_030244629.2 → XP_030100489.1  zinc finger protein 558 isoform X3

      UniProtKB/TrEMBL
      Q9DAN2
      Conserved Domains (3) summary
      COG5048
      Location:110 → 251
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:147 → 167
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:18 → 43
      zf-H2C2_2; Zinc-finger double domain

    10. XM_036155309.1 → XP_036011202.1  zinc finger protein 558 isoform X3

      UniProtKB/TrEMBL
      Q9DAN2
      Conserved Domains (3) summary
      COG5048
      Location:110 → 251
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:147 → 167
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:18 → 43
      zf-H2C2_2; Zinc-finger double domain

    11. XM_030244626.2 → XP_030100486.1  zinc finger protein 558 isoform X3

      UniProtKB/TrEMBL
      Q9DAN2
      Conserved Domains (3) summary
      COG5048
      Location:110 → 251
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:147 → 167
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:18 → 43
      zf-H2C2_2; Zinc-finger double domain

    12. XM_036155310.1 → XP_036011203.1  zinc finger protein 558 isoform X3

      UniProtKB/TrEMBL
      Q9DAN2
      Conserved Domains (3) summary
      COG5048
      Location:110 → 251
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:147 → 167
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:18 → 43
      zf-H2C2_2; Zinc-finger double domain

    13. XM_030244624.2 → XP_030100484.1  zinc finger protein 558 isoform X1

      UniProtKB/TrEMBL
      E9Q1J0
      Conserved Domains (3) summary
      smart00349
      Location:43 → 100
      KRAB; krueppel associated box
      COG5048
      Location:125 → 403
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:299 → 319
      ZF_C2H2; C2H2 Zn finger [structural motif]

    14. XM_030244625.2 → XP_030100485.1  zinc finger protein 558 isoform X2

      Conserved Domains (3) summary
      smart00349
      Location:19 → 76
      KRAB; krueppel associated box
      COG5048
      Location:101 → 379
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:275 → 295
      ZF_C2H2; C2H2 Zn finger [structural motif]

    15. XM_036155312.1 → XP_036011205.1  zinc finger protein 558 isoform X3

      UniProtKB/TrEMBL
      Q9DAN2
      Conserved Domains (3) summary
      COG5048
      Location:110 → 251
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:147 → 167
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:18 → 43
      zf-H2C2_2; Zinc-finger double domain

    16. XM_017313602.3 → XP_017169091.1  zinc finger protein 558 isoform X1

      UniProtKB/TrEMBL
      E9Q1J0
      Conserved Domains (3) summary
      smart00349
      Location:43 → 100
      KRAB; krueppel associated box
      COG5048
      Location:125 → 403
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:299 → 319
      ZF_C2H2; C2H2 Zn finger [structural motif]

    17. XM_036155308.1 → XP_036011201.1  zinc finger protein 558 isoform X3

      UniProtKB/TrEMBL
      Q9DAN2
      Conserved Domains (3) summary
      COG5048
      Location:110 → 251
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:147 → 167
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:18 → 43
      zf-H2C2_2; Zinc-finger double domain
    Nucleotide Protein Strain
    Heading Accession and Version

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