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SATB1 SATB homeobox 1 [ Homo sapiens (human) ]

Gene ID: 6304, updated on 11-Aug-2014
Official Symbol
SATB1provided by HGNC
Official Full Name
SATB homeobox 1provided by HGNC
Primary source
HGNC:10541
See related
Ensembl:ENSG00000182568; HPRD:03647; MIM:602075; Vega:OTTHUMG00000129890
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene encodes a matrix protein which binds nuclear matrix and scaffold-associating DNAs through a unique nuclear architecture. The protein recruits chromatin-remodeling factors in order to regulate chromatin structure and gene expression. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2010]
See SATB1 in Epigenomics, MapViewer
Location:
3p23
Exon count:
14
Annotation release Status Assembly Chr Location
106 current GRCh38 (GCF_000001405.26) 3 NC_000003.12 (18345806..18444871, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (18389133..18480265, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene phosducin-like 3 pseudogene 3 Neighboring gene uncharacterized LOC339862 Neighboring gene SATB1 antisense RNA 1 Neighboring gene SATB1 antisense RNA 1 Neighboring gene RAD23 homolog B (S. cerevisiae) pseudogene 1 Neighboring gene uncharacterized LOC101927805

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

NHGRI GWAS Catalog

Description
New gene functions in megakaryopoiesis and platelet formation.
NHGRI GWA Catalog
  • Apoptosis, organism-specific biosystem (from REACTOME)
    Apoptosis, organism-specific biosystemApoptosis is a distinct form of cell death that is functionally and morphologically different from necrosis. Nuclear chromatin condensation, cytoplasmic shrinking, dilated endoplasmic reticulum, and ...
  • Apoptotic cleavage of cellular proteins, organism-specific biosystem (from REACTOME)
    Apoptotic cleavage of cellular proteins, organism-specific biosystemApoptotic cell death is achieved by the caspase-mediatedcleavage of various vital proteins. Among caspase targets are proteins such as E-cadherin, Beta-catenin, alpha fodrin, GAS2, FADK, alpha adduc...
  • Apoptotic execution phase, organism-specific biosystem (from REACTOME)
    Apoptotic execution phase, organism-specific biosystemIn the execution phase of apoptosis, effector caspases cleave vital cellular proteins leading to the morphological changes that characterize apoptosis. These changes include destruction of the nucle...
  • Caspase cascade in apoptosis, organism-specific biosystem (from Pathway Interaction Database)
    Caspase cascade in apoptosis, organism-specific biosystem
    Caspase cascade in apoptosis
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chromatin binding IEA
Inferred from Electronic Annotation
more info
 
double-stranded DNA binding TAS
Traceable Author Statement
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
sequence-specific DNA binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
CD4-positive, alpha-beta T cell differentiation IEA
Inferred from Electronic Annotation
more info
 
CD8-positive, alpha-beta T cell differentiation IEA
Inferred from Electronic Annotation
more info
 
activated T cell proliferation IEA
Inferred from Electronic Annotation
more info
 
apoptotic process TAS
Traceable Author Statement
more info
 
cellular component disassembly involved in execution phase of apoptosis TAS
Traceable Author Statement
more info
 
chromatin organization TAS
Traceable Author Statement
more info
PubMed 
chromatin remodeling IEA
Inferred from Electronic Annotation
more info
 
epidermis development IEA
Inferred from Electronic Annotation
more info
 
histone methylation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription from RNA polymerase II promoter IMP
Inferred from Mutant Phenotype
more info
PubMed 
reflex IEA
Inferred from Electronic Annotation
more info
 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
PML body IDA
Inferred from Direct Assay
more info
PubMed 
nuclear heterochromatin IEA
Inferred from Electronic Annotation
more info
 
nuclear matrix IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
Preferred Names
DNA-binding protein SATB1
Names
DNA-binding protein SATB1
special AT-rich sequence-binding protein 1
special AT-rich sequence binding protein 1 (binds to nuclear matrix/scaffold-associating DNA)

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.

Genomic

  1. NG_027814.1 

    Range
    5001..96133
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001131010.2NP_001124482.1  DNA-binding protein SATB1 isoform 1

    See proteins identical to NP_001124482.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and lacks an alternate exon in the 3' coding region, compared to variant 3. Isoform 1 has a shorter C-terminus, compared to isoform 2.
    Source sequence(s)
    AA001621, AK127242, BC001744, DA938384, DB141938
    Consensus CDS
    CCDS2631.1
    UniProtKB/Swiss-Prot
    Q01826
    Conserved Domains (3) summary
    pfam02376
    Location:363448
    Blast Score: 288
    CUT; CUT domain
    cd11585
    Location:74169
    Blast Score: 435
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    cd00086
    Location:646703
    Blast Score: 119
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
  2. NM_001195470.1NP_001182399.1  DNA-binding protein SATB1 isoform 2

    See proteins identical to NP_001182399.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (2).
    Source sequence(s)
    AA001621, AB209761, AC144521, AK127242, DA938384
    Consensus CDS
    CCDS56242.1
    UniProtKB/Swiss-Prot
    Q01826
    Related
    ENSP00000399518, OTTHUMP00000207689, ENST00000417717, OTTHUMT00000339360
    Conserved Domains (3) summary
    pfam02376
    Location:363448
    Blast Score: 288
    CUT; CUT domain
    cd11585
    Location:74169
    Blast Score: 435
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    cd00086
    Location:678735
    Blast Score: 120
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
  3. NM_002971.4NP_002962.1  DNA-binding protein SATB1 isoform 1

    See proteins identical to NP_002962.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR and lacks an alternate exon in the 3' coding region, compared to variant 3. Isoform 1 has a shorter C-terminus, compared to isoform 2.
    Source sequence(s)
    AA001621, AB209761, AC144521, AK127242, BC001744, DA938384
    Consensus CDS
    CCDS2631.1
    UniProtKB/Swiss-Prot
    Q01826
    Conserved Domains (3) summary
    pfam02376
    Location:363448
    Blast Score: 288
    CUT; CUT domain
    cd11585
    Location:74169
    Blast Score: 435
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    cd00086
    Location:646703
    Blast Score: 119
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 106

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

Reference GRCh38 Primary Assembly

Genomic

  1. NC_000003.12 

    Range
    18345806..18444871
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006713280.1XP_006713343.1  

    See proteins identical to XP_006713343.1

    UniProtKB/Swiss-Prot
    Q01826
    Conserved Domains (3) summary
    pfam02376
    Location:363448
    Blast Score: 288
    CUT; CUT domain
    cd11585
    Location:74169
    Blast Score: 435
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    cd00086
    Location:646703
    Blast Score: 119
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
  2. XM_006713281.1XP_006713344.1  

    Conserved Domains (2) summary
    pfam02376
    Location:363448
    Blast Score: 290
    CUT; CUT domain
    cd11585
    Location:74169
    Blast Score: 437
    SATB1_N; N-terminal domain of SATB1 and similar proteins

Alternate HuRef

Genomic

  1. AC_000135.1 

    Range
    18323695..18414820
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate CHM1_1.1

Genomic

  1. NC_018914.2 

    Range
    18342029..18433152
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)