sall4 spalt-like transcription factor 4 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: sall4provided by ZNC
Official Full Name: spalt-like transcription factor 4provided by ZNC
Primary source: ZFIN:ZDB-GENE-060328-2
See related: Ensembl:ENSDARG00000044485 AllianceGenome:ZFIN:ZDB-GENE-060328-2
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: cb372; cb614; sb:cb372; sb:cb614; wu:fa01g03; ik:tdsubc_2c1; xx:tdsubc_2c1
Summary: Enables chromatin binding activity. Acts upstream of or within embryonic pectoral fin morphogenesis and positive regulation of fibroblast growth factor receptor signaling pathway. Predicted to be active in nucleus. Is expressed in several structures, including brain; fin bud; mesoderm; neural plate; and neural tube. Human ortholog(s) of this gene implicated in Duane retraction syndrome; Duane-radial ray syndrome; Holt-Oram syndrome; IVIC syndrome; and ventricular septal defect. Orthologous to human SALL4 (spalt like transcription factor 4). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 23

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	23	NC_007134.7 (38941448..38949909)
105	previous assembly	GRCz10 (GCF_000002035.5)	23	NC_007134.6 (39227847..39236331)

Chromosome 23 - NC_007134.7 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
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?

Sall4 expression expression in chemosensory cells implicates this transcription factor in the development and renewal of taste epithelia in zebrafish.
Title: Expression of sall4 in taste buds of zebrafish.
Sall gene family redundancy and tbx5 offer explanations for the similarity of individuals with Okihiro syndrome and Holt-Oram syndrome limb defects
Title: sall4 acts downstream of tbx5 and is required for pectoral fin outgrowth.

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General gene information

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Markers

AA495241 (e-PCR)
- UniSTS:205654

fa01g03.s1 (e-PCR)
- UniSTS:202132

aa495241 (e-PCR)
- UniSTS:186851

aa497165 (e-PCR)
- UniSTS:186867

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within embryonic pectoral fin morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of fibroblast growth factor receptor signaling pathway	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

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: sal-like protein 4

Names: sal-like 4

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_001080609.1 → NP_001074078.1 sal-like protein 4

See identical proteins and their annotated locations for NP_001074078.1

Status: PROVISIONAL

Source sequence(s)

EF051583

UniProtKB/TrEMBL

A0MWC1

Related

ENSDARP00000065330.4, ENSDART00000065331.6

Conserved Domains (4) summary

cd11674
Location:882 → 929

lambda-1; inner capsid protein lambda-1 or VP3

sd00017
Location:565 → 585

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:623 → 645

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:577 → 602

zf-H2C2_2; Zinc-finger double domain