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Satb2 special AT-rich sequence binding protein 2 [ Mus musculus (house mouse) ]

Gene ID: 212712, updated on 26-Jun-2024

Summary

Official Symbol
Satb2provided by MGI
Official Full Name
special AT-rich sequence binding protein 2provided by MGI
Primary source
MGI:MGI:2679336
See related
Ensembl:ENSMUSG00000038331 AllianceGenome:MGI:2679336
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
BAP002; mKIAA1034
Summary
Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and chromatin binding activity. Acts upstream of or within several processes, including generation of neurons; regulation of transcription by RNA polymerase II; and skeletal system development. Located in nucleus. Part of histone deacetylase complex and transcription regulator complex. Is expressed in several structures, including 1st branchial arch; cerebral cortex; facial prominence; genitourinary system; and limb. Used to study isolated cleft palate. Human ortholog(s) of this gene implicated in SATB2-associated syndrome. Orthologous to human SATB2 (SATB homeobox 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in colon adult (RPKM 11.8), CNS E18 (RPKM 11.0) and 8 other tissues See more
Orthologs
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Genomic context

See Satb2 in Genome Data Viewer
Location:
1 C1.3; 1 28.72 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (56833145..57019350, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (56793981..56981190, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 53554 Neighboring gene STARR-seq mESC enhancer starr_00966 Neighboring gene STARR-seq mESC enhancer starr_00967 Neighboring gene STARR-seq mESC enhancer starr_00969 Neighboring gene heat shock transcription factor, Y-linked 2 Neighboring gene STARR-seq mESC enhancer starr_00971 Neighboring gene STARR-seq mESC enhancer starr_00972 Neighboring gene STARR-seq mESC enhancer starr_00973 Neighboring gene predicted gene, 51624 Neighboring gene STARR-seq mESC enhancer starr_00974 Neighboring gene STARR-seq mESC enhancer starr_00975 Neighboring gene RIKEN cDNA 9130024F11 gene Neighboring gene predicted gene, 38484 Neighboring gene RIKEN cDNA 1700126A01 gene

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

Gene Ontology Provided by MGI

Process Evidence Code Pubs
acts_upstream_of_or_within cartilage development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
 
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within chromatin remodeling IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within embryonic pattern specification IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryonic skeletal system morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within neuron migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within osteoblast development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within osteoblast development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of gene expression 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
 
acts_upstream_of_or_within roof of mouth development IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
part_of chromatin IC
Inferred by Curator
more info
PubMed 
part_of histone deacetylase complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
PubMed 
part_of transcription regulator complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
DNA-binding protein SATB2
Names
KIAA1034-like DNA binding protein
two cut domains-containing homeodomain protein

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_001358580.2NP_001345509.1  DNA-binding protein SATB2 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC101777, AC131072
    Consensus CDS
    CCDS14965.1
    UniProtKB/Swiss-Prot
    Q8VI24
    UniProtKB/TrEMBL
    H3BKH3, Q546B3
    Conserved Domains (4) summary
    smart00389
    Location:614671
    HOX; Homeodomain
    cd11585
    Location:60155
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:481551
    CUT; CUT domain
    pfam16557
    Location:166232
    CUTL; CUT1-like DNA-binding domain of SATB
  2. NM_001358581.2NP_001345510.1  DNA-binding protein SATB2 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC101777, AC131072
    Consensus CDS
    CCDS14965.1
    UniProtKB/Swiss-Prot
    Q8VI24
    UniProtKB/TrEMBL
    H3BKH3, Q546B3
    Conserved Domains (4) summary
    smart00389
    Location:614671
    HOX; Homeodomain
    cd11585
    Location:60155
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:481551
    CUT; CUT domain
    pfam16557
    Location:166232
    CUTL; CUT1-like DNA-binding domain of SATB
  3. NM_001420844.1NP_001407773.1  DNA-binding protein SATB2 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC101777, AC131072
    UniProtKB/TrEMBL
    H3BKH3
  4. NM_001420845.1NP_001407774.1  DNA-binding protein SATB2 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC101777, AC131072
    UniProtKB/Swiss-Prot
    Q8VI24
    UniProtKB/TrEMBL
    H3BKH3, Q546B3
  5. NM_139146.3NP_631885.1  DNA-binding protein SATB2 isoform 1

    See identical proteins and their annotated locations for NP_631885.1

    Status: VALIDATED

    Source sequence(s)
    AC101777, AC131072
    Consensus CDS
    CCDS14965.1
    UniProtKB/Swiss-Prot
    Q8VI24
    UniProtKB/TrEMBL
    H3BKH3, Q546B3
    Related
    ENSMUSP00000110057.4, ENSMUST00000114415.10
    Conserved Domains (4) summary
    smart00389
    Location:614671
    HOX; Homeodomain
    cd11585
    Location:60155
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:481551
    CUT; CUT domain
    pfam16557
    Location:166232
    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_000067.7 Reference GRCm39 C57BL/6J

    Range
    56833145..57019350 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006495827.5XP_006495890.1  DNA-binding protein SATB2 isoform X1

    See identical proteins and their annotated locations for XP_006495890.1

    UniProtKB/TrEMBL
    H3BKH3
    Conserved Domains (4) summary
    smart00389
    Location:621678
    HOX; Homeodomain
    cd11585
    Location:67162
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:484563
    CUT; CUT domain
    pfam16557
    Location:169239
    CUTL; CUT1-like DNA-binding domain of SATB
  2. XM_036163326.1XP_036019219.1  DNA-binding protein SATB2 isoform X2

    UniProtKB/TrEMBL
    H3BKH3
    Conserved Domains (4) summary
    smart00389
    Location:556613
    HOX; Homeodomain
    cd11585
    Location:297
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:419498
    CUT; CUT domain
    pfam16557
    Location:104174
    CUTL; CUT1-like DNA-binding domain of SATB
  3. XM_030252735.2XP_030108595.1  DNA-binding protein SATB2 isoform X1

    UniProtKB/TrEMBL
    H3BKH3
    Conserved Domains (4) summary
    smart00389
    Location:621678
    HOX; Homeodomain
    cd11585
    Location:67162
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:484563
    CUT; CUT domain
    pfam16557
    Location:169239
    CUTL; CUT1-like DNA-binding domain of SATB