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    Sinhcaf SIN3-HDAC complex associated factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 686611, updated on 11-Apr-2024

    Summary

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    Symbol
    Sinhcafprovided by RGD
    Full Name
    SIN3-HDAC complex associated factorprovided by RGD
    Primary source
    RGD:1595037
    See related
    Ensembl:ENSRNOG00000049943 AllianceGenome:RGD:1595037
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Fam60a
    Summary
    Predicted to be involved in negative regulation of cell differentiation; negative regulation of cell migration; and positive regulation of cell population proliferation. Predicted to be part of Sin3 complex. Orthologous to human SINHCAF (SIN3-HDAC complex associated factor). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 116.2), Spleen (RPKM 87.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sinhcaf in Genome Data Viewer
    Location:
    4q44
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (183619647..183644628, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (181888301..181913294, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (183401314..183426439, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene 40S ribosomal protein S23 pseudogene Neighboring gene caprin family member 2 Neighboring gene phosphatidylinositol transfer protein, beta, pseudogene 1 Neighboring gene uncharacterized LOC134486897 Neighboring gene small nucleolar RNA SNORA3/SNORA45 family Neighboring gene DENN domain containing 5B Neighboring gene U6 spliceosomal RNA

    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. Fam60a defines a variant Sin3a-Hdac complex in embryonic stem cells required for self-renewal. Streubel G, et al. EMBO J, 2017 Aug 1. PMID 28554894, Free PMC Article
    2. Human family with sequence similarity 60 member A (FAM60A) protein: a new subunit of the Sin3 deacetylase complex. Smith KT, et al. Mol Cell Proteomics, 2012 Dec. PMID 22984288, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    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

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC187734

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in negative regulation of cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of Sin3-type complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of Sin3-type complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    SIN3-HDAC complex-associated factor
    Names
    family with sequence similarity 60, member A
    protein FAM60A-like

    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_001134711.1 → NP_001128183.1  SIN3-HDAC complex-associated factor

      See identical proteins and their annotated locations for NP_001128183.1

      Status: VALIDATED

      Source sequence(s)
      BC168169
      UniProtKB/TrEMBL
      A0A9K3Y7U5, B4F781, M0RC11
      Related
      ENSRNOP00000067114.3, ENSRNOT00000071930.3
      Conserved Domains (1) summary
      pfam15396
      Location:2 → 198
      FAM60A; Protein Family FAM60A

    2. NM_001134712.1 → NP_001128184.1  SIN3-HDAC complex-associated factor

      See identical proteins and their annotated locations for NP_001128184.1

      Status: VALIDATED

      Source sequence(s)
      BC168169, EV762285
      UniProtKB/TrEMBL
      A0A9K3Y7U5, B4F781, M0RC11
      Conserved Domains (1) summary
      pfam15396
      Location:2 → 198
      FAM60A; Protein Family FAM60A

    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_086022.1 Reference GRCr8

      Range
      183619647..183644628 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039108360.2 → XP_038964288.1  SIN3-HDAC complex-associated factor isoform X1

      UniProtKB/TrEMBL
      A0A9K3Y7U5, B4F781, M0RC11
      Conserved Domains (1) summary
      pfam15396
      Location:2 → 198
      FAM60A; Protein Family FAM60A

    2. XM_063286697.1 → XP_063142767.1  SIN3-HDAC complex-associated factor isoform X1

      UniProtKB/TrEMBL
      A0A9K3Y7U5, B4F781, M0RC11

    3. XM_039108361.1 → XP_038964289.1  SIN3-HDAC complex-associated factor isoform X1

      UniProtKB/TrEMBL
      A0A9K3Y7U5, B4F781, M0RC11
      Conserved Domains (1) summary
      pfam15396
      Location:2 → 198
      FAM60A; Protein Family FAM60A
    Nucleotide Protein Strain
    Heading Accession and Version

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