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    Hmg20b high mobility group 20 B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362825, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Hmg20bprovided by RGD
    Official Full Name
    high mobility group 20 Bprovided by RGD
    Primary source
    RGD:1309235
    See related
    EnsemblRapid:ENSRNOG00000020601 AllianceGenome:RGD:1309235
    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
    Summary
    Predicted to enable DNA binding activity. Predicted to be involved in regulation of gene expression. Predicted to act upstream of or within negative regulation of protein sumoylation; positive regulation of neuron differentiation; and skeletal muscle cell differentiation. Predicted to be located in nuclear body. Predicted to be active in nucleus. Orthologous to human HMG20B (high mobility group 20B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 93.1), Kidney (RPKM 85.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Hmg20b in Genome Data Viewer
    Location:
    7q11
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (9019670..9024382)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (8368934..8373650)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (11238594..11243312)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene fizzy and cell division cycle 20 related 1 Neighboring gene tektin bundle interacting protein 1 Neighboring gene major facilitator superfamily domain containing 12 Neighboring gene GIPC PDZ domain containing family, member 3 Neighboring gene thromboxane A2 receptor

    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. Control of neuronal differentiation by sumoylation of BRAF35, a subunit of the LSD1-CoREST histone demethylase complex. Ceballos-Chávez M, et al. Proc Natl Acad Sci U S A, 2012 May 22. PMID 22570500, Free PMC Article
    2. The interaction with HMG20a/b proteins suggests a potential role for beta-dystrobrevin in neuronal differentiation. Artegiani B, et al. J Biol Chem, 2010 Aug 6. PMID 20530487, Free PMC Article
    3. Analysis of early C2C12 myogenesis identifies stably and differentially expressed transcriptional regulators whose knock-down inhibits myoblast differentiation. Rajan S, et al. Physiol Genomics, 2012 Feb 1. PMID 22147266
    4. 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

    What's a GeneRIF?
    1. beta-dystrobrevin interacts with the HMG20 proteins iBRAF and BRAF35
      Title: The interaction with HMG20a/b proteins suggests a potential role for beta-dystrobrevin in neuronal differentiation.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within negative regulation of protein sumoylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of protein sumoylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within skeletal muscle cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in nuclear body IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related

    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_001108731.1 → NP_001102201.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related

      See identical proteins and their annotated locations for NP_001102201.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474029
      UniProtKB/TrEMBL
      A6K887, A6K890
      Conserved Domains (2) summary
      COG5648
      Location:45 → 203
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01390
      Location:70 → 134
      HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

    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_086025.1 Reference GRCr8

      Range
      9019670..9024382
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063263714.1 → XP_063119784.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X1

    2. XM_063263716.1 → XP_063119786.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X2

    3. XM_063263717.1 → XP_063119787.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X3

    4. XM_063263719.1 → XP_063119789.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X5

    5. XM_006240944.4 → XP_006241006.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X6

      UniProtKB/TrEMBL
      A6K890
      Related
      ENSRNOP00000074794.3, ENSRNOT00000086194.3
      Conserved Domains (2) summary
      COG5648
      Location:26 → 229
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01390
      Location:96 → 160
      HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...

    6. XM_063263718.1 → XP_063119788.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X4

      Related
      ENSRNOP00000028002.7, ENSRNOT00000028002.8

    7. XM_006240946.4 → XP_006241008.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X8

      See identical proteins and their annotated locations for XP_006241008.1

      UniProtKB/TrEMBL
      A6K887, A6K890
      Conserved Domains (2) summary
      COG5648
      Location:45 → 203
      NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
      cd01390
      Location:70 → 134
      HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

    8. XM_063263720.1 → XP_063119790.1  SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related isoform X7

    Nucleotide Protein Strain
    Heading Accession and Version

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