myf5 myogenic factor 5 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: myf5provided by ZNC
Official Full Name: myogenic factor 5provided by ZNC
Primary source: ZFIN:ZDB-GENE-000616-6
See related: Ensembl:ENSDARG00000007277 AllianceGenome:ZFIN:ZDB-GENE-000616-6
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: cb641; myf-5; zgc:110509
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. Acts upstream of or within several processes, including chordate pharyngeal muscle development; neural crest cell development; and skeletal muscle tissue development. Located in nucleolus and nucleoplasm. Is expressed in several structures, including mesoderm; musculature system; myoblast; pharyngeal arch; and post-vent region. Orthologous to human MYF5 (myogenic factor 5). [provided by Alliance of Genome Resources, Oct 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 4

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	4	NC_007115.7 (21741228..21745107)
105	previous assembly	GRCz10 (GCF_000002035.5)	4	NC_007115.6 (22020253..22024132)

Chromosome 4 - NC_007115.7 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 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?

Fgf-driven Tbx protein activities directly induce myf5 and myod to initiate zebrafish myogenesis.
Title: Fgf-driven Tbx protein activities directly induce myf5 and myod to initiate zebrafish myogenesis.
Loss of Myf5 function results in a cascade effect that begins with abnormal formation of the dorsal organizer during gastrulation, causing defects in myf5-knockdown embryos
Title: Normal function of Myf5 during gastrulation is required for pharyngeal arch cartilage development in zebrafish embryos.
the secreted ligand Dkk3a binds to the membrane receptor Itgalpha6b, which increases the protein level of phosphorylated p38a and activates myf5 promoter activity of zebrafish embryos during myogenesis.
Title: Zebrafish Dkk3a protein regulates the activity of myf5 promoter through interaction with membrane receptor integrin α6b.
a novel intronic microRNA, miR-In300, which is derived from I300 of the first intron of zebrafish myf5, enables significant repression of myf5 promoter activity through silencing the long isoform of the Dickkopfs-3 gene.
Title: Novel intronic microRNA represses zebrafish myf5 promoter activity through silencing dickkopf-3 gene.
Functional analysis of intron 1 showed a strong, negative, cis-regulatory element located at +502/+835, and this is the first study to identify a novel, cis-acting silencer that is crucial to negatively regulating myf-5 expression.
Title: Novel cis-element in intron 1 represses somite expression of zebrafish myf-5.
A novel regulatory base sequence functions as a key element to drive the somite-specificity of myf-5.
Title: Novel regulatory sequence -82/-62 functions as a key element to drive the somite-specificity of zebrafish myf-5.
cell lineage-specific expression of myf5 is delicately orchestrated by multiple modules within the distal upstream region. This study provides an insight to understand the molecular control of myf5 and myogenesis in the zebrafish.
Title: Multiple upstream modules regulate zebrafish myf5 expression.
Myf5 and Myod function independently during cranial myogenesis.
Title: Myogenic regulatory factors Myf5 and Myod function distinctly during craniofacial myogenesis of zebrafish.
Foxd3, a well-known regulator in neural crest development, is also involved in myf5 regulation
Title: Foxd3 mediates zebrafish myf5 expression during early somitogenesis.

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General gene information

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Gene Ontology Provided by ZFIN

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 RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chordate pharyngeal muscle development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within extraocular skeletal muscle development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within mesoderm development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within muscle organ development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within muscle organ development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within neural crest cell development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of myoblast differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of skeletal muscle fiber development	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
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in skeletal muscle cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within skeletal muscle fiber development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within skeletal muscle tissue development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within skeletal muscle tissue development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within striated muscle cell development	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in nucleolus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	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: myogenic factor 5

Names: myogenic regulatory factor 5

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_131576.1 → NP_571651.1 myogenic factor 5

See identical proteins and their annotated locations for NP_571651.1

Status: PROVISIONAL

Source sequence(s)

AF270789

UniProtKB/TrEMBL

Q9DDW0

Related

ENSDARP00000109289.2, ENSDART00000127664.4

Conserved Domains (3) summary

smart00520
Location:4 → 72

BASIC; Basic domain in HLH proteins of MYOD family

pfam00010
Location:68 → 119

HLH; Helix-loop-helix DNA-binding domain

pfam12232
Location:151 → 199

Myf5; Myogenic determination factor 5