myod1 myogenic differentiation 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: myod1provided by ZNC
Official Full Name: myogenic differentiation 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-980526-561
See related: Ensembl:ENSDARG00000030110 AllianceGenome:ZFIN:ZDB-GENE-980526-561
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: myod; wu:fb57a01; zgc:136744; etID309723.25
Summary: Predicted to enable DNA binding activity; DNA-binding transcription factor activity, RNA polymerase II-specific; and promoter-specific chromatin binding activity. Acts upstream of or within muscle organ development and striated muscle cell development. Located in nucleus. Is expressed in several structures, including head; mesoderm; musculature system; presumptive mesoderm; and trunk. Orthologous to human MYOD1 (myogenic differentiation 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 25

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	25	NC_007136.7 (31421253..31423459, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	25	NC_007136.6 (30843777..30845983, complement)

Chromosome 25 - NC_007136.7 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?

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.
Irxl1/Mkx can repress myoD expression through direct binding to its promoter and may thus play a negative regulatory role in muscle differentiation.
Title: The homeobox transcription factor Irxl1 negatively regulates MyoD expression and myoblast differentiation.
Myod in turn up-regulates cdkn1c, thereby providing a positive feedback loop that switches myogenic cells to terminal differentiation
Title: Cdkn1c drives muscle differentiation through a positive feedback loop with Myod.
Myf5 and Myod function independently during cranial myogenesis.
Title: Myogenic regulatory factors Myf5 and Myod function distinctly during craniofacial myogenesis of zebrafish.

Submit: New GeneRIF Correction

General gene information

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Markers

fb57a01.x1 (e-PCR)
- UniSTS:203333

Z36945 (e-PCR)
- UniSTS:205451

myod (e-PCR), detects polymorphism
- UniSTS:238234

Z36945 (e-PCR)
- UniSTS:205563

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables DNA-binding transcription activator activity	ISS Inferred from Sequence or Structural Similarity more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables E-box binding	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables promoter-specific chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
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
involved_in cellular response to estradiol stimulus	ISS Inferred from Sequence or Structural Similarity 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 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 muscle organ development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within muscle organ development	ISS Inferred from Sequence or Structural Similarity more info
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
involved_in positive regulation of snRNA transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity 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 cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within skeletal muscle fiber development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within skeletal muscle fiber development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within skeletal muscle tissue development	IEP Inferred from Expression Pattern more info
acts_upstream_of_or_within skeletal muscle tissue development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within striated muscle cell development	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
NOT located_in nucleoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: myoblast determination protein 1 homolog

Names: myoblast determination 1; myogenic factor 1

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_131262.2 → NP_571337.2 myoblast determination protein 1 homolog

See identical proteins and their annotated locations for NP_571337.2

Status: PROVISIONAL

Source sequence(s)

BC114261

UniProtKB/Swiss-Prot

Q29RD1, Q90477, Q98TY7

Related

ENSDARP00000009713.7, ENSDART00000027661.8

Conserved Domains (3) summary

smart00520
Location:1 → 89

BASIC; Basic domain in HLH proteins of MYOD family

pfam00010
Location:85 → 136

HLH; Helix-loop-helix DNA-binding domain

pfam12232
Location:151 → 220

Myf5; Myogenic determination factor 5