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

Gene ID: 309031, updated on 2-Nov-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 located in nucleus. 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, Nov 2024]
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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