egl-13 HMG box domain-containing protein;Transcription factor egl-13 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: egl-13
Official Full Name: HMG box domain-containing protein;Transcription factor egl-13
Primary source: WormBase:WBGene00001182
Locus tag: CELE_T22B7.1
See related: AllianceGenome:WB:WBGene00001182
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including generation of neurons; regulation of DNA-templated transcription; and vulval development. Located in nucleus. Is expressed in several structures, including developing hermaphrodite gonad; egg-laying apparatus; intestinal cell; neurons; and uterine pi cell. Human ortholog(s) of this gene implicated in high grade glioma. Orthologous to human SOX13 (SRY-box transcription factor 13); SOX5 (SRY-box transcription factor 5); and SOX6 (SRY-box transcription factor 6). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See egl-13 in Genome Data Viewer

Location:: chromosome: X

Exon count:: 11

Sequence:: Chromosome: X; NC_003284.9 (5663837..5674067)

Chromosome X - NC_003284.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003284.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

the same core regulatory factor, egl-13, is required and sufficient to specify the distinct fates of O2- and CO2-sensing neurons in C. elegans
Title: EGL-13/SoxD specifies distinct O2 and CO2 sensory neuron fates in Caenorhabditis elegans.
study determined that dual regulation by LIN-12 and FOS-1 is required for egl-13 expression at specification and for complete rescue of egl-13 mutants
Title: Co-regulation by Notch and Fos is required for cell fate specification of intermediate precursors during C. elegans uterine development.
the wild-type him-8 gene product acts antagonistically to EGL-13
Title: C. elegans HIM-8 functions outside of meiosis to antagonize EGL-13 Sox protein function.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

W01C8.2 (e-PCR)
- UniSTS:311078

T22B7.1 (e-PCR)
- UniSTS:317123

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

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

Process	Evidence Code	Pubs
involved_in anatomical structure morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in asymmetric neuroblast division	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in cell fate commitment	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron fate determination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in 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
involved_in vulval development	IMP Inferred from Mutant Phenotype more info	PubMed

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

General protein information

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Preferred Names: HMG box domain-containing protein;Transcription factor egl-13

NP_001024918.1

Confirmed by transcript evidence

NP_001294842.1

Confirmed by transcript evidence

NP_001317909.1

Partially confirmed by transcript evidence

NP_001317910.1

Confirmed by transcript evidence

NP_001368074.1

Confirmed by transcript evidence

NP_001380089.1

Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_003284.9 Reference assembly

Range

5663837..5674067

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001029747.7 → NP_001024918.1 Transcription factor egl-13 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001024918.1

Status: REVIEWED

UniProtKB/Swiss-Prot

H2L0M3, Q23045, Q4PIT4, Q86G49, Q9TZN5

Conserved Domains (1) summary

cd01388
Location:328 → 399

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 ...
NM_001392777.1 → NP_001380089.1 Transcription factor egl-13 [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (1) summary

cd01388
Location:174 → 245

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 vertebrates, and ...
NM_001380981.1 → NP_001368074.1 Transcription factor egl-13 [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (1) summary

cd01388
Location:280 → 351

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 vertebrates, and ...
NM_001330899.4 → NP_001317909.1 HMG box domain-containing protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A1C3NSN8

Conserved Domains (1) summary

cd01388
Location:296 → 367

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 vertebrates, and ...
NM_001307913.5 → NP_001294842.1 Transcription factor egl-13 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001294842.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q23045

Conserved Domains (1) summary

cd01388
Location:177 → 248

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 ...
NM_001330900.4 → NP_001317910.1 HMG box domain-containing protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A1C3NSN7

Conserved Domains (1) summary

cd01388
Location:171 → 242

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 vertebrates, and ...