sem-4 Spalt-like protein sem-4 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: sem-4
Official Full Name: Spalt-like protein sem-4
Primary source: WormBase:WBGene00004773
Locus tag: CELE_F15C11.1
See related: AllianceGenome:WB:WBGene00004773
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: Enables RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in several processes, including regulation of gene expression; transdifferentiation; and vulval cell fate determination. Located in nucleus. Is expressed in several structures, including M lineage cell; nervous system; rectal epithelial cell; rectum; and tail hypodermis. Human ortholog(s) of this gene implicated in several diseases, including Duane retraction syndrome; Duane-radial ray syndrome; Holt-Oram syndrome; IVIC syndrome; and Townes-Brocks syndrome. Orthologous to several human genes including SALL1 (spalt like transcription factor 1) and SALL3 (spalt like transcription factor 3). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See sem-4 in Genome Data Viewer

Location:: chromosome: I

Exon count:: 10

Sequence:: Chromosome: I; NC_003279.8 (7038900..7048832)

Chromosome I - NC_003279.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003279.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

sem-4 has a role in the development of both the vulva and the sex muscles, a major part of the nematode egg-laying system.
Title: sem-4/spalt and egl-17/FGF have a conserved role in sex myoblast specification and migration in P. pacificus and C. elegans.
Data show that sem-4 indirectly modulates mec-3 expression through its repression of egl-5 and that this negative regulation is required for proper determination of neuronal fates.
Title: The Caenorhabditis elegans spalt-like gene sem-4 restricts touch cell fate by repressing the selector Hox gene egl-5 and the effector gene mec-3.

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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

F15C11.1 (e-PCR)
- UniSTS:307488

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

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 RNA polymerase II transcription 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

Process	Evidence Code	Pubs
involved_in mesodermal cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in muscle cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in myoblast fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuroblast differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	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
involved_in regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to oxidative stress	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transdifferentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vulval cell fate determination	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: Spalt-like protein sem-4

NP_491997.1

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_003279.8 Reference assembly

Range

7038900..7048832

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_059596.5 → NP_491997.1 Spalt-like protein sem-4 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_491997.1

Status: REVIEWED

UniProtKB/Swiss-Prot

G5EFF4, Q7JNU7

Conserved Domains (4) summary

cd11674
Location:553 → 610

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

sd00017
Location:591 → 611

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:589 → 611

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:603 → 628

zf-H2C2_2; Zinc-finger double domain