Sall1 spalt like transcription factor 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Sall1provided by MGI
Official Full Name: spalt like transcription factor 1provided by MGI
Primary source: MGI:MGI:1889585
See related: Ensembl:ENSMUSG00000031665 AllianceGenome:MGI:1889585
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: Msal-3
Summary: Enables several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II-specific DNA-binding transcription factor binding activity; and cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including negative regulation of ectoderm development; nephron epithelium morphogenesis; and nervous system development. Acts upstream of or within several processes, including kidney development; limb morphogenesis; and nervous system development. Located in heterochromatin and nucleus. Part of NuRD complex. Is expressed in several structures, including autopod; central nervous system; embryo mesenchyme; metanephros; and sensory organ. Used to study Townes-Brocks syndrome. Human ortholog(s) of this gene implicated in Townes-Brocks syndrome; middle lobe syndrome; and renal Wilms' tumor. Orthologous to human SALL1 (spalt like transcription factor 1). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Broad expression in frontal lobe adult (RPKM 12.3), kidney adult (RPKM 12.2) and 16 other tissues See more
Orthologs: human all
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Genomic context

Location:: 8 C3; 8 43.51 cM

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	8	NC_000074.7 (89753867..89770790, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	8	NC_000074.6 (89027242..89044162, complement)

Chromosome 8 - NC_000074.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Sall genes regulate hindlimb initiation in mouse embryos.
Title: Sall genes regulate hindlimb initiation in mouse embryos.
Sall1 and Sall4 cooperatively interact with Myocd and SRF to promote cardiomyocyte proliferation by regulating CDK and cyclin genes.
Title: Sall1 and Sall4 cooperatively interact with Myocd and SRF to promote cardiomyocyte proliferation by regulating CDK and cyclin genes.
SALL1 enforces microglia-specific DNA binding and function of SMADs to establish microglia identity.
Title: SALL1 enforces microglia-specific DNA binding and function of SMADs to establish microglia identity.
The zinc finger transcription factor Sall1 is required for the early developmental transition of microglia in mouse embryos.
Title: The zinc finger transcription factor Sall1 is required for the early developmental transition of microglia in mouse embryos.
SALL1 regulates commitment of odontoblast lineages by interacting with RUNX2 to remodel open chromatin regions.
Title: SALL1 regulates commitment of odontoblast lineages by interacting with RUNX2 to remodel open chromatin regions.
Sall1 is strongly expressed in the lens from the early developmental stage and plays an essential role in the maintenance of fiber cell and lens epithelium adhesion.
Title: Sall1 plays pivotal roles for lens fiber cell differentiation in mouse.
Sall1-deficient microglia exhibited morphological abnormalities on embryonic day 18 that strikingly resembled the phenotype observed in Sall1 knockout mice. In the postnatal retina, Sall1-deficient microglia became comparable to that of wild-type microglia on postnatal day 21. Sall1 is essential for microglial ramification in the developing retina, but not in the postnatal retina.
Title: Sall1 Regulates Microglial Morphology Cell Autonomously in the Developing Retina.
demonstrate in vivo that the conditional overexpression of Ifng in metanephric mesenchymal (MM) progenitors results in renal agenesis or hypoplasia. Cell death was observed in and around the MM region of E10.5-11.5 mutants where Ifng was constitutively expressed during early kidney development and resulted in retardation of branching morphogenesis. Expression of Sall1 was decreased in the MM of mutant kidneys.
Title: Constitutive metanephric mesenchyme-specific expression of interferon-gamma causes renal dysplasia by regulating Sall1 expression.
The data of this study indicated that Sall1 regulates microglial morphology during development.
Title: Conditional rod photoreceptor ablation reveals Sall1 as a microglial marker and regulator of microglial morphology in the retina.
Data suggest that Sall1 is associated with actin reorganization, endoplasmic reticulum stress, and apoptosis in podocytes injured by adriamycin, a topoisomerase II inhibitor used as antineoplastic antibiotic known to cause nephrosis and glomerulosclerosis.
Title: Re-expression of Sall1 in podocytes protects against adriamycin-induced nephrosis.

Submit: New GeneRIF Correction See all GeneRIFs (36)

Variation

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Alleles

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

Endonuclease-mediated (5) 1 citation
Spontaneous (1) 1 citation
Targeted (12) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

PMC140661P2 (e-PCR)
- UniSTS:270952

AF021116 (e-PCR)
- UniSTS:53632

Sall1 (e-PCR), detects polymorphism
- UniSTS:530846

NoName (e-PCR)
- UniSTS:235962

RH47686 (e-PCR)
- UniSTS:92136

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables beta-catenin binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables cis-regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of GABAergic neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of branching involved in ureteric bud morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in branching involved in ureteric bud morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryonic digestive tract development	ISO Inferred from Sequence Orthology more info
involved_in embryonic digit morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryonic digit morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within forelimb morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in heart development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hindlimb morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within inductive cell-cell signaling	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in kidney development	ISO Inferred from Sequence Orthology more info
involved_in kidney epithelium development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in limb development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mesenchymal stem cell maintenance involved in metanephric nephron morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of mesenchymal to epithelial transition involved in metanephros morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mesenchymal to epithelial transition involved in metanephros morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of ectoderm development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of mesoderm development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of smoothened signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in 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	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural tube closure	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within neural tube development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within olfactory bulb development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in olfactory bulb interneuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in olfactory bulb mitral cell layer development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within olfactory nerve development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in olfactory nerve development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of branching involved in ureteric bud morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of neuron differentiation	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	IMP Inferred from Mutant Phenotype 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 neuroblast proliferation	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 smoothened signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ureteric bud development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ureteric bud invasion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ureteric bud invasion	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ventricular septum development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in ventricular septum development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of NuRD complex	IDA Inferred from Direct Assay more info	PubMed
located_in chromocenter	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in heterochromatin	IDA Inferred from Direct Assay more info	PubMed
located_in heterochromatin	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	TAS Traceable Author Statement more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IC Inferred by Curator more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: sal-like protein 1

Names: sal-3; sal-like 1; zinc finger protein Spalt-3

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_001371069.1 → NP_001357998.1 sal-like protein 1

Status: VALIDATED

Source sequence(s)

AC147558

Consensus CDS

CCDS40427.1

UniProtKB/Swiss-Prot

Q920R5, Q9ER74

UniProtKB/TrEMBL

Q6P5E3

Conserved Domains (6) summary

COG5048
Location:700 → 1168

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:707 → 727

ZF_C2H2; C2H2 Zn finger [structural motif]

sd00019
Location:1002 → 1022

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:1028 → 1050

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:719 → 744

zf-H2C2_2; Zinc-finger double domain

cd20908
Location:449 → 536

SUF4-like; N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), Arabidopsis thaliana SUF4 (AtSUF4), and similar proteins
NM_001371070.1 → NP_001357999.1 sal-like protein 1

Status: VALIDATED

Source sequence(s)

AC147558

Consensus CDS

CCDS40427.1

UniProtKB/Swiss-Prot

Q920R5, Q9ER74

UniProtKB/TrEMBL

Q6P5E3

Conserved Domains (6) summary

COG5048
Location:700 → 1168

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:707 → 727

ZF_C2H2; C2H2 Zn finger [structural motif]

sd00019
Location:1002 → 1022

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:1028 → 1050

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:719 → 744

zf-H2C2_2; Zinc-finger double domain

cd20908
Location:449 → 536

SUF4-like; N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), Arabidopsis thaliana SUF4 (AtSUF4), and similar proteins
NM_021390.3 → NP_067365.2 sal-like protein 1

See identical proteins and their annotated locations for NP_067365.2

Status: VALIDATED

Source sequence(s)

BC062937

Consensus CDS

CCDS40427.1

UniProtKB/Swiss-Prot

Q920R5, Q9ER74

UniProtKB/TrEMBL

Q6P5E3

Related

ENSMUSP00000034090.7, ENSMUST00000034090.8

Conserved Domains (6) summary

COG5048
Location:700 → 1168

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:707 → 727

ZF_C2H2; C2H2 Zn finger [structural motif]

sd00019
Location:1002 → 1022

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:1028 → 1050

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:719 → 744

zf-H2C2_2; Zinc-finger double domain

cd20908
Location:449 → 536

SUF4-like; N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), Arabidopsis thaliana SUF4 (AtSUF4), and similar proteins

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

NC_000074.7 Reference GRCm39 C57BL/6J

Range

89753867..89770790 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036154203.1 → XP_036010096.1 sal-like protein 1 isoform X1

UniProtKB/TrEMBL

Q9EPW7

Conserved Domains (6) summary

COG5048
Location:603 → 1071

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:610 → 630

ZF_C2H2; C2H2 Zn finger [structural motif]

sd00019
Location:905 → 925

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:931 → 953

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:622 → 647

zf-H2C2_2; Zinc-finger double domain

cd20908
Location:352 → 439

SUF4-like; N-terminal domain of Oryza sativa transcription factor SUPPRESSOR OF FRI 4 (OsSUF4), Arabidopsis thaliana SUF4 (AtSUF4), and similar proteins