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Satb1 special AT-rich sequence binding protein 1 [ Mus musculus (house mouse) ]

Gene ID: 20230, updated on 5-Nov-2024

Summary

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Official Symbol
Satb1provided by MGI
Official Full Name
special AT-rich sequence binding protein 1provided by MGI
Primary source
MGI:MGI:105084
See related
Ensembl:ENSMUSG00000023927 AllianceGenome:MGI:105084
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
2610306G12Rik
Summary
Enables several functions, including DNA-binding transcription factor activity; DNA-binding transcription factor binding activity; and chromatin binding activity. Acts upstream of or within several processes, including T cell activation; negative regulation of transcription by RNA polymerase II; and reflex. Located in heterochromatin and nuclear matrix. Is expressed in several structures, including alimentary system; genitourinary system; nervous system; respiratory system; and sensory organ. Used to study Sjogren's syndrome. Orthologous to human SATB1 (SATB homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in thymus adult (RPKM 74.6), cortex adult (RPKM 7.3) and 5 other tissues See more
Orthologs
human all
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Genomic context

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See Satb1 in Genome Data Viewer
Location:
17 C; 17 26.81 cM
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (52043215..52140318, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (51736187..51833290, complement)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene 60S ribosomal protein L26 pseudogene Neighboring gene predicted gene, 31143 Neighboring gene STARR-seq mESC enhancer starr_42807 Neighboring gene STARR-seq mESC enhancer starr_42808 Neighboring gene STARR-seq mESC enhancer starr_42810 Neighboring gene STARR-positive B cell enhancer ABC_E10962 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:51972530-51972717 Neighboring gene STARR-seq mESC enhancer starr_42811 Neighboring gene STARR-seq mESC enhancer starr_42812 Neighboring gene predicted gene 6934 Neighboring gene predicted gene, 54011 Neighboring gene STARR-positive B cell enhancer mm9_chr17:52043120-52043421 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:52043404-52043557 Neighboring gene predicted gene, 20098 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:52095713-52095914

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. SATB1 prevents immune cell infiltration by regulating chromatin organization and gene expression of a chemokine gene cluster in T cells. Wang B, et al. Commun Biol, 2024 Oct 11. PMID 39394451, Free PMC Article
  2. Regulation of SATB1 during thymocyte development by TCR signaling. Gottimukkala KP, et al. Mol Immunol, 2016 Sep. PMID 27454343, Free PMC Article
  3. Nicotinamide induces apoptosis of F9 mouse teratocarcinoma stem cells by downregulation of SATB1 expression. Zhang Y, et al. Tumour Biol, 2015 Jun. PMID 25596087
  4. Crystal structure of the ubiquitin-like domain-CUT repeat-like tandem of special AT-rich sequence binding protein 1 (SATB1) reveals a coordinating DNA-binding mechanism. Wang Z, et al. J Biol Chem, 2014 Oct 3. PMID 25124042, Free PMC Article
  5. Efficient genome engineering by targeted homologous recombination in mouse embryos using transcription activator-like effector nucleases. Sommer D, et al. Nat Commun, 2014. PMID 24413636

See all (117) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SATB1 prevents immune cell infiltration by regulating chromatin organization and gene expression of a chemokine gene cluster in T cells.
    Title: SATB1 prevents immune cell infiltration by regulating chromatin organization and gene expression of a chemokine gene cluster in T cells.
  2. Long Non-Coding RNA ANRIL Regulates Inflammatory Factor Expression in Ulcerative Colitis Via the miR-191-5p/SATB1 Axis.
    Title: Long Non-Coding RNA ANRIL Regulates Inflammatory Factor Expression in Ulcerative Colitis Via the miR-191-5p/SATB1 Axis.
  3. A dual function for the chromatin organizer Special A-T rich Binding Protein 1 in B-lineage cells.
    Title: A dual function for the chromatin organizer Special A-T rich Binding Protein 1 in B-lineage cells.
  4. SATB1 regulates 3D genome architecture in T cells by constraining chromatin interactions surrounding CTCF-binding sites.
    Title: SATB1 regulates 3D genome architecture in T cells by constraining chromatin interactions surrounding CTCF-binding sites.
  5. Crucial Roles of SATB1 in Regulation of Thymocyte Migration after Positive Selection.
    Title: Crucial Roles of SATB1 in Regulation of Thymocyte Migration after Positive Selection.
  6. Identification of a novel enhancer essential for Satb1 expression in TH2 cells and activated ILC2s.
    Title: Identification of a novel enhancer essential for Satb1 expression in T(H)2 cells and activated ILC2s.
  7. The role of selective SATB1 deletion in somatostatin expressing interneurons on endogenous network activity and the transition to epilepsy.
    Title: The role of selective SATB1 deletion in somatostatin expressing interneurons on endogenous network activity and the transition to epilepsy.
  8. Reduced Satb1 expression predisposes CD4(+) T conventional cells to Treg suppression and promotes transplant survival.
    Title: Reduced Satb1 expression predisposes CD4(+) T conventional cells to Treg suppression and promotes transplant survival.
  9. SATB1 ensures appropriate transcriptional programs within naive CD8(+) T cells.
    Title: SATB1 ensures appropriate transcriptional programs within naïve CD8(+) T cells.
  10. Special AT-Rich Sequence-Binding Protein 1 Supports Survival and Maturation of Naive B Cells Stimulated by B Cell Receptors.
    Title: Special AT-Rich Sequence-Binding Protein 1 Supports Survival and Maturation of Naive B Cells Stimulated by B Cell Receptors.
Submit: New GeneRIF Correction See all GeneRIFs (53)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription factor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
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 IDA
Inferred from Direct Assay
more info
 PubMed 
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within CD4-positive, alpha-beta T cell differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within CD8-positive, alpha-beta T cell differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within T cell activation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within activated T cell proliferation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within chromatin organization IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within chromatin remodeling IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within epidermis development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within reflex IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in PML body IEA
Inferred from Electronic Annotation
more info
  
located_in PML body ISO
Inferred from Sequence Orthology
more info
  
located_in chromatin IDA
Inferred from Direct Assay
more info
 PubMed 
located_in heterochromatin IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear matrix IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
DNA-binding protein SATB1

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_001163630.1 → NP_001157102.1  DNA-binding protein SATB1 isoform 1

    See identical proteins and their annotated locations for NP_001157102.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1-4 encode the same protein.
    Source sequence(s)
    AC131975, AK037740, AK081385, AK158518, AW045567, CV556064
    Consensus CDS
    CCDS28876.1
    UniProtKB/Swiss-Prot
    Q60611, Q91XB1
    Related
    ENSMUSP00000119842.3, ENSMUST00000152830.9
    Conserved Domains (4) summary
    smart00389
    Location:645 → 702
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  2. NM_001163631.1 → NP_001157103.1  DNA-binding protein SATB1 isoform 1

    See identical proteins and their annotated locations for NP_001157103.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1-4 encode the same protein.
    Source sequence(s)
    AC131975, AK037740, AK081385, AK134040, AW045567, BB611616
    Consensus CDS
    CCDS28876.1
    UniProtKB/Swiss-Prot
    Q60611, Q91XB1
    Related
    ENSMUSP00000128841.2, ENSMUST00000169480.8
    Conserved Domains (4) summary
    smart00389
    Location:645 → 702
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  3. NM_001163632.1 → NP_001157104.1  DNA-binding protein SATB1 isoform 1

    See identical proteins and their annotated locations for NP_001157104.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1-4 encode the same protein.
    Source sequence(s)
    AC131975, AC154796, AK037740, AK081385, AK134040, AW045567
    Consensus CDS
    CCDS28876.1
    UniProtKB/Swiss-Prot
    Q60611, Q91XB1
    Related
    ENSMUSP00000120536.2, ENSMUST00000133574.8
    Conserved Domains (4) summary
    smart00389
    Location:645 → 702
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  4. NM_001357636.1 → NP_001344565.1  DNA-binding protein SATB1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC131975, AC154796, AW045567
    Conserved Domains (4) summary
    smart00389
    Location:677 → 734
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  5. NM_001357637.1 → NP_001344566.1  DNA-binding protein SATB1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC131975, AC154796, AW045567
    Conserved Domains (4) summary
    smart00389
    Location:644 → 701
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  6. NM_001357638.1 → NP_001344567.1  DNA-binding protein SATB1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC131975, AC154796, AW045567
    Consensus CDS
    CCDS28876.1
    UniProtKB/Swiss-Prot
    Q60611, Q91XB1
    Conserved Domains (4) summary
    smart00389
    Location:645 → 702
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  7. NM_001357640.1 → NP_001344569.1  DNA-binding protein SATB1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC131975, AC154796, AW045567
    Conserved Domains (4) summary
    smart00389
    Location:625 → 682
    HOX; Homeodomain
    cd11585
    Location:74 → 169
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:366 → 443
    CUT; CUT domain
    pfam16557
    Location:176 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  8. NM_009122.2 → NP_033148.2  DNA-binding protein SATB1 isoform 1

    See identical proteins and their annotated locations for NP_033148.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1-4 encode the same protein.
    Source sequence(s)
    AC131975, AK037740, AK081385, AK134040, AW045567
    Consensus CDS
    CCDS28876.1
    UniProtKB/Swiss-Prot
    Q60611, Q91XB1
    Related
    ENSMUSP00000116006.2, ENSMUST00000144331.8
    Conserved Domains (4) summary
    smart00389
    Location:645 → 702
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    52043215..52140318 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006523926.5 → XP_006523989.1  DNA-binding protein SATB1 isoform X1

    See identical proteins and their annotated locations for XP_006523989.1

    Conserved Domains (4) summary
    smart00389
    Location:677 → 734
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  2. XM_006523925.3 → XP_006523988.1  DNA-binding protein SATB1 isoform X1

    See identical proteins and their annotated locations for XP_006523988.1

    Conserved Domains (4) summary
    smart00389
    Location:677 → 734
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  3. XM_017317366.3 → XP_017172855.1  DNA-binding protein SATB1 isoform X3

    Conserved Domains (4) summary
    smart00389
    Location:593 → 650
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  4. XM_006523924.4 → XP_006523987.1  DNA-binding protein SATB1 isoform X1

    See identical proteins and their annotated locations for XP_006523987.1

    Conserved Domains (4) summary
    smart00389
    Location:677 → 734
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  5. XM_036160424.1 → XP_036016317.1  DNA-binding protein SATB1 isoform X4

    Conserved Domains (4) summary
    smart00389
    Location:592 → 649
    HOX; Homeodomain
    pfam02376
    Location:372 → 444
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:176 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  6. XM_006523927.5 → XP_006523990.1  DNA-binding protein SATB1 isoform X2

    UniProtKB/TrEMBL
    E9PVB7
    Related
    ENSMUSP00000118839.2, ENSMUST00000140979.8
    Conserved Domains (4) summary
    smart00389
    Location:676 → 733
    HOX; Homeodomain
    pfam02376
    Location:372 → 439
    CUT; CUT domain
    pfam16534
    Location:72 → 170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180 → 246
    CUTL; CUT1-like DNA-binding domain of SATB
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q60611.2 GenPept UniProtKB/Swiss-Prot:Q60611

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