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

Gene ID: 20230, updated on 10-Jan-2023

Summary

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; histone methylation; and negative regulation of transcription by RNA polymerase II. Located in heterochromatin and nuclear matrix. Is expressed in several structures, including alimentary system; genitourinary system; integumental system; nervous system; and sensory organ. Orthologous to human SATB1 (SATB homeobox 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in thymus adult (RPKM 74.6), cortex adult (RPKM 7.3) and 5 other tissues See more
Orthologs
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Genomic context

See Satb1 in Genome Data Viewer
Location:
17; 17 C
Exon count:
15
Annotation release Status Assembly Chr Location
109 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 predicted gene, 54011 Neighboring gene predicted gene, 20098

Genomic regions, transcripts, and products

Expression

  • Project title: 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

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
PubMed 
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 histone methylation IDA
Inferred from Direct Assay
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
 
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
PubMed 
Component Evidence Code Pubs
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
 

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_001163630.1NP_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:645702
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB
  2. NM_001163631.1NP_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:645702
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB
  3. NM_001163632.1NP_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:645702
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB
  4. NM_001357636.1NP_001344565.1  DNA-binding protein SATB1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC131975, AC154796, AW045567
    Conserved Domains (4) summary
    smart00389
    Location:677734
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB
  5. NM_001357637.1NP_001344566.1  DNA-binding protein SATB1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC131975, AC154796, AW045567
    Conserved Domains (4) summary
    smart00389
    Location:644701
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB
  6. NM_001357638.1NP_001344567.1  DNA-binding protein SATB1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC131975, AC154796, AW045567
    Consensus CDS
    CCDS28876.1
    UniProtKB/Swiss-Prot
    Q91XB1
    Conserved Domains (4) summary
    smart00389
    Location:645702
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB
  7. NM_001357640.1NP_001344569.1  DNA-binding protein SATB1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC131975, AC154796, AW045567
    Conserved Domains (4) summary
    smart00389
    Location:625682
    HOX; Homeodomain
    cd11585
    Location:74169
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:366443
    CUT; CUT domain
    pfam16557
    Location:176246
    CUTL; CUT1-like DNA-binding domain of SATB
  8. NM_009122.2NP_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:645702
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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_006523926.5XP_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:677734
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB
  2. XM_006523925.3XP_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:677734
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB
  3. XM_017317366.3XP_017172855.1  DNA-binding protein SATB1 isoform X3

    Conserved Domains (4) summary
    smart00389
    Location:593650
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB
  4. XM_006523924.4XP_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:677734
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB
  5. XM_036160424.1XP_036016317.1  DNA-binding protein SATB1 isoform X4

    Conserved Domains (4) summary
    smart00389
    Location:592649
    HOX; Homeodomain
    pfam02376
    Location:372444
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:176246
    CUTL; CUT1-like DNA-binding domain of SATB
  6. XM_006523927.5XP_006523990.1  DNA-binding protein SATB1 isoform X2

    UniProtKB/TrEMBL
    E9PVB7
    Related
    ENSMUSP00000118839.2, ENSMUST00000140979.8
    Conserved Domains (4) summary
    smart00389
    Location:676733
    HOX; Homeodomain
    pfam02376
    Location:372439
    CUT; CUT domain
    pfam16534
    Location:72170
    ULD; Ubiquitin-like oligomerization domain of SATB
    pfam16557
    Location:180246
    CUTL; CUT1-like DNA-binding domain of SATB