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    Ikzf5 IKAROS family zinc finger 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 309031, updated on 17-Aug-2024

    Summary

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    Official Symbol
    Ikzf5provided by RGD
    Official Full Name
    IKAROS family zinc finger 5provided by RGD
    Primary source
    RGD:1310965
    See related
    EnsemblRapid:ENSRNOG00000025651 AllianceGenome:RGD:1310965
    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
    Zfpn1a5
    Summary
    Predicted to enable several functions, including DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and zinc ion binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to be part of protein-containing complex. Human ortholog(s) of this gene implicated in thrombocytopenia. Orthologous to human IKZF5 (IKAROS family zinc finger 5). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Muscle (RPKM 95.8), Heart (RPKM 94.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ikzf5 in Genome Data Viewer
    Location:
    1q41
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (195599287..195619024, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (186169108..186188847, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (201961524..201981250, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene similar to human chromosome 10 open reading frame 88 Neighboring gene phosphoseryl-tRNA kinase Neighboring gene acyl-CoA dehydrogenase, short/branched chain Neighboring gene motile sperm domain containing 3, pseudogene 1

    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 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. Eos and pegasus, two members of the Ikaros family of proteins with distinct DNA binding activities. Perdomo J, et al. J Biol Chem, 2000 Dec 8. PMID 10978333
    2. Structural studies on a protein-binding zinc-finger domain of Eos reveal both similarities and differences to classical zinc fingers. Westman BJ, et al. Biochemistry, 2004 Oct 26. PMID 15491138
    3. 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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein Pegasus
    Names
    zinc finger protein, subfamily 1A, 5

    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_001107555.1 → NP_001101025.1  zinc finger protein Pegasus

      See identical proteins and their annotated locations for NP_001101025.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473953
      UniProtKB/TrEMBL
      A6HWW7, D3ZBK4
      Related
      ENSRNOP00000036563.4, ENSRNOT00000035531.7
      Conserved Domains (3) summary
      PHA03269
      Location:251 → 361
      PHA03269; envelope glycoprotein C; Provisional
      sd00017
      Location:84 → 104
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:124 → 148
      zf-H2C2_2; Zinc-finger double domain

    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_086019.1 Reference GRCr8

      Range
      195599287..195619024 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006230401.4 → XP_006230463.1  zinc finger protein Pegasus isoform X1

      See identical proteins and their annotated locations for XP_006230463.1

      UniProtKB/TrEMBL
      A6HWW7, D3ZBK4
      Conserved Domains (3) summary
      PHA03269
      Location:251 → 361
      PHA03269; envelope glycoprotein C; Provisional
      sd00017
      Location:84 → 104
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:124 → 148
      zf-H2C2_2; Zinc-finger double domain
    Nucleotide Protein Strain
    Heading Accession and Version

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