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    Satb1 SATB homeobox 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 316164, updated on 9-Dec-2024

    Summary

    Official Symbol
    Satb1provided by RGD
    Official Full Name
    SATB homeobox 1provided by RGD
    Primary source
    RGD:1305561
    See related
    EnsemblRapid:ENSRNOG00000012942 AllianceGenome:RGD:1305561
    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 several functions, including DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and chromatin binding activity. Predicted to be involved in chromatin remodeling and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including T cell activation; negative regulation of transcription by RNA polymerase II; and reflex. Predicted to be located in PML body; heterochromatin; and nuclear matrix. Orthologous to human SATB1 (SATB homeobox 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 1186.9), Spleen (RPKM 92.9) and 1 other tissue See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Satb1 in Genome Data Viewer
    Location:
    9q11
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (4916958..5010359, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (4677817..4773061, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (2181135..2277949)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA44 Neighboring gene 60S ribosomal protein L26 pseudogene Neighboring gene uncharacterized LOC134480317 Neighboring gene ribosomal protein L31, pseudogene 7 Neighboring gene Fcf1 rRNA-processing protein, pseudogene 6

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within CD4-positive, alpha-beta T cell differentiation  
    acts_upstream_of_or_within CD8-positive, alpha-beta T cell differentiation  
    acts_upstream_of_or_within T cell activation  
    acts_upstream_of_or_within activated T cell proliferation  
    acts_upstream_of_or_within chromatin organization  
    involved_in chromatin remodeling  
    acts_upstream_of_or_within chromatin remodeling  
    acts_upstream_of_or_within epidermis development  
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of transcription by RNA polymerase II  
    acts_upstream_of_or_within reflex  
    acts_upstream_of_or_within regulation of DNA-templated transcription  
    involved_in regulation of DNA-templated transcription  
    involved_in regulation of transcription by RNA polymerase II  
    Component Evidence Code Pubs
    located_in PML body  
    located_in chromatin  
    located_in heterochromatin  
    located_in nuclear body  
    located_in nuclear matrix  
    located_in nucleoplasm  
    located_in nucleus  

    General protein information

    Preferred Names
    DNA-binding protein SATB1
    Names
    special AT-rich sequence binding protein 1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001012129.2NP_001012129.1  DNA-binding protein SATB1

      See identical proteins and their annotated locations for NP_001012129.1

      Status: PROVISIONAL

      Source sequence(s)
      BC085814
      UniProtKB/TrEMBL
      Q5U2Y2
      Conserved Domains (4) summary
      smart00389
      Location:645702
      HOX; Homeodomain
      pfam02376
      Location:494566
      CUT; CUT domain
      pfam16534
      Location:72170
      ULD; Ubiquitin-like oligomerization domain of SATB
      pfam16557
      Location:200247
      CUTL; CUT1-like DNA-binding domain of SATB

    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_086027.1 Reference GRCr8

      Range
      4916958..5010359 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063267079.1XP_063123149.1  DNA-binding protein SATB1 isoform X6

      UniProtKB/TrEMBL
      Q5U2Y2
    2. XM_063267074.1XP_063123144.1  DNA-binding protein SATB1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JYZ8, A6KPP7
    3. XM_063267075.1XP_063123145.1  DNA-binding protein SATB1 isoform X6

      UniProtKB/TrEMBL
      Q5U2Y2
    4. XM_063267072.1XP_063123142.1  DNA-binding protein SATB1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JYZ8, A6KPP7
    5. XM_063267076.1XP_063123146.1  DNA-binding protein SATB1 isoform X6

      UniProtKB/TrEMBL
      Q5U2Y2
    6. XM_063267070.1XP_063123140.1  DNA-binding protein SATB1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JYZ8, A6KPP7
    7. XM_063267068.1XP_063123138.1  DNA-binding protein SATB1 isoform X1

    8. XM_063267077.1XP_063123147.1  DNA-binding protein SATB1 isoform X6

      UniProtKB/TrEMBL
      Q5U2Y2
    9. XM_063267071.1XP_063123141.1  DNA-binding protein SATB1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JYZ8, A6KPP7
    10. XM_039083476.2XP_038939404.1  DNA-binding protein SATB1 isoform X1

      Conserved Domains (4) summary
      smart00389
      Location:678735
      HOX; Homeodomain
      pfam02376
      Location:497567
      CUT; CUT domain
      pfam16534
      Location:72170
      ULD; Ubiquitin-like oligomerization domain of SATB
      pfam16557
      Location:176246
      CUTL; CUT1-like DNA-binding domain of SATB
    11. XM_063267080.1XP_063123150.1  DNA-binding protein SATB1 isoform X6

      UniProtKB/TrEMBL
      Q5U2Y2
    12. XM_063267078.1XP_063123148.1  DNA-binding protein SATB1 isoform X6

      UniProtKB/TrEMBL
      Q5U2Y2
    13. XM_063267073.1XP_063123143.1  DNA-binding protein SATB1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JYZ8, A6KPP7
    14. XM_039083478.2XP_038939406.1  DNA-binding protein SATB1 isoform X1

      Conserved Domains (4) summary
      smart00389
      Location:678735
      HOX; Homeodomain
      pfam02376
      Location:497567
      CUT; CUT domain
      pfam16534
      Location:72170
      ULD; Ubiquitin-like oligomerization domain of SATB
      pfam16557
      Location:176246
      CUTL; CUT1-like DNA-binding domain of SATB
    15. XM_039083481.2XP_038939409.1  DNA-binding protein SATB1 isoform X5

      UniProtKB/TrEMBL
      F7ENV6
      Related
      ENSRNOP00000017557.4, ENSRNOT00000017556.8
      Conserved Domains (4) summary
      smart00389
      Location:644701
      HOX; Homeodomain
      pfam02376
      Location:497567
      CUT; CUT domain
      pfam16534
      Location:72170
      ULD; Ubiquitin-like oligomerization domain of SATB
      pfam16557
      Location:176246
      CUTL; CUT1-like DNA-binding domain of SATB
    16. XM_039083480.2XP_038939408.1  DNA-binding protein SATB1 isoform X4

      Conserved Domains (4) summary
      smart00389
      Location:646703
      HOX; Homeodomain
      pfam02376
      Location:497567
      CUT; CUT domain
      pfam16534
      Location:72170
      ULD; Ubiquitin-like oligomerization domain of SATB
      pfam16557
      Location:176246
      CUTL; CUT1-like DNA-binding domain of SATB
    17. XM_063267069.1XP_063123139.1  DNA-binding protein SATB1 isoform X3

    18. XM_006244219.4XP_006244281.1  DNA-binding protein SATB1 isoform X2

      See identical proteins and their annotated locations for XP_006244281.1

      UniProtKB/TrEMBL
      A0A0G2JYZ8, A6KPP7
      Related
      ENSRNOP00000070853.2, ENSRNOT00000077417.3
      Conserved Domains (4) summary
      smart00389
      Location:677734
      HOX; Homeodomain
      pfam02376
      Location:494566
      CUT; CUT domain
      pfam16534
      Location:72170
      ULD; Ubiquitin-like oligomerization domain of SATB
      pfam16557
      Location:200247
      CUTL; CUT1-like DNA-binding domain of SATB
    19. XM_039083475.2XP_038939403.1  DNA-binding protein SATB1 isoform X1

      Conserved Domains (4) summary
      smart00389
      Location:678735
      HOX; Homeodomain
      pfam02376
      Location:497567
      CUT; CUT domain
      pfam16534
      Location:72170
      ULD; Ubiquitin-like oligomerization domain of SATB
      pfam16557
      Location:176246
      CUTL; CUT1-like DNA-binding domain of SATB
    20. XM_039083479.1XP_038939407.1  DNA-binding protein SATB1 isoform X1

      Conserved Domains (4) summary
      smart00389
      Location:678735
      HOX; Homeodomain
      pfam02376
      Location:497567
      CUT; CUT domain
      pfam16534
      Location:72170
      ULD; Ubiquitin-like oligomerization domain of SATB
      pfam16557
      Location:176246
      CUTL; CUT1-like DNA-binding domain of SATB
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