spi1b Spi-1 proto-oncogene b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: spi1bprovided by ZNC
Official Full Name: Spi-1 proto-oncogene bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-980526-164
See related: Ensembl:ENSDARG00000000767 AllianceGenome:ZFIN:ZDB-GENE-980526-164
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: pu1; pu.1; spi1; sfpi1; cb1086; si:by184l24.2
Summary: Enables sequence-specific DNA binding activity. Involved in macrophage activation involved in immune response and macrophage differentiation. Acts upstream of or within myeloid cell differentiation; negative regulation of myeloid cell differentiation; and regulation of gene expression. Predicted to be active in nucleus. Is expressed in several structures, including hematopoietic cell; hematopoietic system; mesoderm; trunk; and yolk. Human ortholog(s) of this gene implicated in agammaglobulinemia 10. Orthologous to human SPI1 (Spi-1 proto-oncogene). [provided by Alliance of Genome Resources, Oct 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 7

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	7	NC_007118.7 (32644673..32659345, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	7	NC_007118.6 (32373523..32388235, complement)

Chromosome 7 - NC_007118.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The interaction of Pu.1 and cMyb in zebrafish neutrophil development.
Title: The interaction of Pu.1 and cMyb in zebrafish neutrophil development.
The synergistic role of Pu.1 and Fms in zebrafish osteoclast-reducing osteopetrosis and possible therapeutic strategies.
Title: The synergistic role of Pu.1 and Fms in zebrafish osteoclast-reducing osteopetrosis and possible therapeutic strategies.
Data show that Spi1 is a downstream target of histone demethylase Jmjd3 (Jmjd3) during myelopoiesis.
Title: The histone demethylase Jmjd3 regulates zebrafish myeloid development by promoting spi1 expression.
The vertical and paralleled Pu.1/Spi-b regulatory networks control the development of rostral blood island and ventral wall of dorsal aorta-borne macrophages by regulating Irf8.
Title: Distinct regulatory networks control the development of macrophages of different origins in zebrafish.
eaf1 has a role in suppressing foxo3b expression to modulate transcriptional activity of gata1 and spi1 in primitive hematopoiesis
Title: Zebrafish eaf1 suppresses foxo3b expression to modulate transcriptional activity of gata1 and spi1 in primitive hematopoiesis.
Our results indicate that Kzp is a critical transcriptional factor for the expression of gata2 and pu.1 to modulate primitive hematopoiesis.
Title: Kzp regulates the transcription of gata2 and pu.1 during primitive hematopoiesis in zebrafish embryos.
Runx1 is induced by high Pu.1 level and in turn transrepresses pu.1 expression, thus constituting a negative feedback loop that fashions a favorable Pu.1 level required for balanced fate commitment to neutrophils versus macrophages.
Title: Runx1 regulates embryonic myeloid fate choice in zebrafish through a negative feedback loop inhibiting Pu.1 expression.
The authors show that tif1gamma modulates the erythroid versus myeloid fate outcomes from HSCs by differentially controlling the levels of gata1 and pu.1.
Title: The gata1/pu.1 lineage fate paradigm varies between blood populations and is modulated by tif1γ.
found a gene group downregulated on spi1 knockdown,containing all 5 previously identified Spi1-dependent genes as well as a large set of novel immune-related genes
Title: Macrophage-specific gene functions in Spi1-directed innate immunity.
Knockdown of the myeloid transcription factor gene pu.1 resulted in complete loss of primitive macrophage development, with effects on granulocyte development only with maximal knockdown.
Title: Differential regulation of primitive myelopoiesis in the zebrafish by Spi-1/Pu.1 and C/ebp1.

Submit: New GeneRIF Correction See all GeneRIFs (13)

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific DNA binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within erythrocyte development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in macrophage activation involved in immune response	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within macrophage differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in macrophage differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in macrophage differentiation	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within myeloid cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within myeloid cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of erythrocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of neutrophil differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of neutrophil differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neutrophil differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within osteoclast development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within osteoclast development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of gene expression	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of gene expression	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within positive regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IGI Inferred from Genetic Interaction 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 regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: transcription factor PU.1b

Names: spleen focus forming virus (SFFV) proviral integration oncogene spi1; spleen focus forming virus (SFFV) proviral integration oncogene spi1b; transcription factor spi1

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)

NM_001328368.1 → NP_001315297.1 transcription factor PU.1b isoform 2

Status: VALIDATED

Source sequence(s)

AL929252, CT030129

UniProtKB/TrEMBL

A0A8M1PA68, F1R668

Related

ENSDARP00000087711.3, ENSDART00000093279.5

Conserved Domains (1) summary

smart00413
Location:167 → 255

ETS; erythroblast transformation specific domain
NM_001328369.1 → NP_001315298.1 transcription factor PU.1b isoform 3

Status: VALIDATED

Source sequence(s)

AL929252, CT030129

UniProtKB/TrEMBL

A0A8M1P911, Q8AW41

Related

ENSDARP00000109500.2, ENSDART00000126831.2

Conserved Domains (1) summary

smart00413
Location:166 → 254

ETS; erythroblast transformation specific domain
NM_198062.2 → NP_932328.2 transcription factor PU.1b isoform 1

Status: VALIDATED

Source sequence(s)

AL929252, CT030129

UniProtKB/TrEMBL

A0A8M1PEY8, F1RBC1, Q78AM8

Related

ENSDARP00000029369.5, ENSDART00000036729.7

Conserved Domains (1) summary

smart00413
Location:197 → 285

ETS; erythroblast transformation specific domain

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

NC_007118.7 Reference GRCz11 Primary Assembly

Range

32644673..32659345 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005168848.5 → XP_005168905.1 transcription factor PU.1b isoform X1

UniProtKB/TrEMBL

A0A8M2BG46

Conserved Domains (1) summary

smart00413
Location:198 → 286

ETS; erythroblast transformation specific domain