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    Rbak RB-associated KRAB zinc finger [ Rattus norvegicus (Norway rat) ]

    Gene ID: 288489, updated on 30-Mar-2024

    Summary

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    Official Symbol
    Rbakprovided by RGD
    Official Full Name
    RB-associated KRAB zinc fingerprovided by RGD
    Primary source
    RGD:1562875
    See related
    Ensembl:ENSRNOG00000001099 AllianceGenome:RGD:1562875
    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
    RGD1562875
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to several human genes including RBAK-RBAKDN (RBAK-RBAKDN readthrough). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 53.4), Lung (RPKM 42.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rbak in Genome Data Viewer
    Location:
    12p11
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (16488895..16502523)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (11375314..11388937)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (13428648..13442279)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene speedy/RINGO cell cycle regulator family member E4 Neighboring gene speedy/RINGO cell cycle regulator family member E4, pseudogene 1 Neighboring gene uncharacterized LOC102555525 Neighboring gene ribosomal protein L36 like 5

    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
    • 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. 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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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    RB-associated KRAB zinc finger protein
    Names
    RB-associated KRAB repressor

    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_001191664.1 → NP_001178593.1  RB-associated KRAB zinc finger protein

      See identical proteins and their annotated locations for NP_001178593.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000012
      UniProtKB/TrEMBL
      F1M2Y6
      Conserved Domains (6) summary
      smart00349
      Location:8 → 68
      KRAB; krueppel associated box
      COG5048
      Location:255 → 694
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:316 → 336
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:314 → 336
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:8 → 47
      KRAB; KRAB box
      pfam13465
      Location:578 → 603
      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_086030.1 Reference GRCr8

      Range
      16488895..16502523
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006248868.4 → XP_006248930.1  RB-associated KRAB zinc finger protein isoform X1

      See identical proteins and their annotated locations for XP_006248930.1

      UniProtKB/TrEMBL
      F1M2Y6
      Conserved Domains (6) summary
      smart00349
      Location:8 → 68
      KRAB; krueppel associated box
      COG5048
      Location:255 → 694
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:316 → 336
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:314 → 336
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:8 → 47
      KRAB; KRAB box
      pfam13465
      Location:578 → 603
      zf-H2C2_2; Zinc-finger double domain

    2. XM_006248867.4 → XP_006248929.1  RB-associated KRAB zinc finger protein isoform X1

      See identical proteins and their annotated locations for XP_006248929.1

      UniProtKB/TrEMBL
      F1M2Y6
      Related
      ENSRNOP00000001455.6
      Conserved Domains (6) summary
      smart00349
      Location:8 → 68
      KRAB; krueppel associated box
      COG5048
      Location:255 → 694
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:316 → 336
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:314 → 336
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:8 → 47
      KRAB; KRAB box
      pfam13465
      Location:578 → 603
      zf-H2C2_2; Zinc-finger double domain
    Nucleotide Protein Strain
    Heading Accession and Version

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