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satb1b SATB homeobox 1b [ Danio rerio (zebrafish) ]

Gene ID: 571757, updated on 2-Nov-2024

Summary

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Official Symbol
satb1bprovided by ZNC
Official Full Name
SATB homeobox 1bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-7105
See related
AllianceGenome:ZFIN:ZDB-GENE-030131-7105
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
fk82h07; wu:fk82h07
Summary
Predicted to enable DNA binding activity. Acts upstream of or within neutrophil differentiation. Predicted to be located in nucleus. Orthologous to human SATB1 (SATB homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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See satb1b in Genome Data Viewer
Location:
chromosome: 16
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (49392603..49561265, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (49173371..49363875, complement)

Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene phospholipase C like 2 Neighboring gene uncharacterized LOC137487986 Neighboring gene uncharacterized LOC137487987 Neighboring gene si:dkey-82o10.4 Neighboring gene uncharacterized LOC110438005 Neighboring gene EF-hand domain family, member B

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Expression of SATB1 and SATB2 in the brain of bony fishes: what fish reveal about evolution. Lozano D, et al. Brain Struct Funct, 2023 May. PMID 37002478, Free PMC Article
  2. A loss of function screen of identified genome-wide association study Loci reveals new genes controlling hematopoiesis. Bielczyk-Maczyńska E, et al. PLoS Genet, 2014 Jul. PMID 25010335, Free PMC Article
  3. Phenotypic Landscape of Schizophrenia-Associated Genes Defines Candidates and Their Shared Functions. Thyme SB, et al. Cell, 2019 Apr 4. PMID 30929901, Free PMC Article
  4. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article
  5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin remodeling IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within myeloid cell differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within neutrophil differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
SATB homeobox 1b
Names
DNA-binding protein SATB1-like

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_001423200.1 → NP_001410129.1  SATB homeobox 1b

    Status: VALIDATED

    Source sequence(s)
    CABZ01059145, CABZ01059146, CABZ01059148, CABZ01059151, CABZ01059152, LO018128
    UniProtKB/TrEMBL
    A0A8M6Z235

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007127.7 Reference GRCz11 Primary Assembly

    Range
    49392603..49561265 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017351562.3 → XP_017207051.2  SATB homeobox 1b isoform X1

    UniProtKB/TrEMBL
    A0A8M2B5C5
    Conserved Domains (4) summary
    smart00389
    Location:706 → 759
    HOX; Homeodomain
    cd11585
    Location:74 → 169
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:391 → 468
    CUT; CUT domain
    pfam16557
    Location:176 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  2. XM_017351563.3 → XP_017207052.2  SATB homeobox 1b isoform X2

    UniProtKB/TrEMBL
    A0A8M6Z235
    Conserved Domains (4) summary
    smart00389
    Location:681 → 734
    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 → 221
    CUTL; CUT1-like DNA-binding domain of SATB

  3. XM_021467035.2 → XP_021322710.1  SATB homeobox 1b isoform X3

    UniProtKB/TrEMBL
    A0A8M9PND1
    Conserved Domains (4) summary
    smart00389
    Location:680 → 733
    HOX; Homeodomain
    cd11585
    Location:74 → 169
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:365 → 442
    CUT; CUT domain
    pfam16557
    Location:176 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  4. XM_005158431.5 → XP_005158488.2  SATB homeobox 1b isoform X1

    UniProtKB/TrEMBL
    A0A8M2B5C5
    Conserved Domains (4) summary
    smart00389
    Location:706 → 759
    HOX; Homeodomain
    cd11585
    Location:74 → 169
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:391 → 468
    CUT; CUT domain
    pfam16557
    Location:176 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  5. XM_068214003.1 → XP_068070104.1  SATB homeobox 1b isoform X4

  6. XM_005158432.5 → XP_005158489.2  SATB homeobox 1b isoform X1

    UniProtKB/TrEMBL
    A0A8M2B5C5
    Conserved Domains (4) summary
    smart00389
    Location:706 → 759
    HOX; Homeodomain
    cd11585
    Location:74 → 169
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:391 → 468
    CUT; CUT domain
    pfam16557
    Location:176 → 246
    CUTL; CUT1-like DNA-binding domain of SATB

  7. XM_021467036.2 → XP_021322711.1  SATB homeobox 1b isoform X5

    UniProtKB/TrEMBL
    A0A8M9PKC9
    Conserved Domains (3) summary
    cd11585
    Location:74 → 169
    SATB1_N; N-terminal domain of SATB1 and similar proteins
    pfam02376
    Location:391 → 468
    CUT; CUT domain
    pfam16557
    Location:176 → 246
    CUTL; CUT1-like DNA-binding domain of SATB
Nucleotide Protein Strain
Heading Accession and Version

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