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

Gene ID: 72230, updated on 5-Mar-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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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
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