sox21a SRY-box transcription factor 21a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: sox21aprovided by ZNC
Official Full Name: SRY-box transcription factor 21aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-990715-6
See related: Ensembl:ENSDARG00000031664 AllianceGenome:ZFIN:ZDB-GENE-990715-6
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: sox21; sox25; sox30; SRY-box
Summary: Enables DNA binding activity and DNA-binding transcription factor activity, RNA polymerase II-specific. Involved in dorsal/ventral pattern formation and negative regulation of transcription by RNA polymerase II. Acts upstream of or within response to steroid hormone. Predicted to be active in nucleus. Is expressed in several structures, including hindbrain neural plate; nervous system; neural rod; neural tube; and pleuroperitoneal region. Orthologous to human SOX21 (SRY-box transcription factor 21). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 6

Exon count:: 1

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	6	NC_007117.7 (7414273..7415343)
105	previous assembly	GRCz10 (GCF_000002035.5)	6	NC_007117.6 (7257104..7258174)

Chromosome 6 - NC_007117.7 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

conserved non-coding elements at the vertebrate Sox21 locus are crucial for Sox21 expression in the embryonic lens and that loss of Sox21 function interferes with normal lens development
Title: Lens development depends on a pair of highly conserved Sox21 regulatory elements.
Comparative analysis of duplicated sox21 genes in zebrafish.
Title: Comparative analysis of duplicated sox21 genes in zebrafish.
Sox21a acts as a repressor in dorso-ventral patterning.
Title: Ectopic expression and knockdown of a zebrafish sox21 reveal its role as a transcriptional repressor in early development.

Submit: New GeneRIF Correction

General gene information

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Markers

PMC304098P3 (e-PCR)
- UniSTS:272522

sox25 (e-PCR)
- UniSTS:205502

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables DNA binding	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in brain development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within dorsal/ventral pattern formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dorsal/ventral pattern formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
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	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to steroid hormone	IEP Inferred from Expression Pattern more info	PubMed

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 Sox-21-A

Names: SRY (sex determining region Y)-box 21a; SRY-box containing gene 25

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_131286.1 → NP_571361.1 transcription factor Sox-21-A

See identical proteins and their annotated locations for NP_571361.1

Status: PROVISIONAL

Source sequence(s)

AF101266

UniProtKB/Swiss-Prot

Q7SZS1, Q804S0, Q9PVF6, Q9YH21

Related

ENSDARP00000049338.4, ENSDART00000049339.6

Conserved Domains (1) summary

cd01388
Location:7 → 78

SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...