dmbx1a diencephalon/mesencephalon homeobox 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: dmbx1aprovided by ZNC
Official Full Name: diencephalon/mesencephalon homeobox 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-020117-1
See related: Ensembl:ENSDARG00000009922 AllianceGenome:ZFIN:ZDB-GENE-020117-1
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: mbx; otx3; pox1; dmbx1; zMbx1; etID309750.1
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in brain development; eye development; and negative regulation of DNA-templated transcription. Acts upstream of or within several processes, including midbrain development; regulation of neural retina development; and retina development in camera-type eye. Predicted to be located in nucleus. Is expressed in several structures, including anterior neural keel; anterior neural rod; immature eye; nervous system; and presumptive diencephalon. Orthologous to human DMBX1 (diencephalon/mesencephalon homeobox 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 2

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	2	NC_007113.7 (10186547..10192381, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	2	NC_007113.6 (10387512..10394561, complement)

Chromosome 2 - NC_007113.7 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?

Mutual antagonism of the paired-type homeobox genes, vsx2 and dmbx1, regulates retinal progenitor cell cycle exit upstream of ccnd1 expression.
Title: Mutual antagonism of the paired-type homeobox genes, vsx2 and dmbx1, regulates retinal progenitor cell cycle exit upstream of ccnd1 expression.
Data suggest that both zebrafish dmbx1a and dmbx1b genes are retained in the fish genome due to their requirement during midbrain and retinal neurogenesis, although their function is partially diverged.
Title: Duplicate dmbx1 genes regulate progenitor cell cycle and differentiation during zebrafish midbrain and retinal development.
revealed a pattern of partial spatiotemporal expression divergence between the mbx paralogs that correlates with sequence divergence in noncoding regulatory domains
Title: Genomic sequence and spatiotemporal expression comparison of zebrafish mbx1 and its paralog, mbx2.

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

Process	Evidence Code	Pubs
involved_in brain development	IEP Inferred from Expression Pattern more info
acts_upstream_of_or_within camera-type eye development	IMP Inferred from Mutant Phenotype more info
involved_in eye development	IEP Inferred from Expression Pattern more info
acts_upstream_of_or_within midbrain development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype 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 cell cycle	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of mitotic cell cycle	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of neural retina development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of neurogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of neurogenesis	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
acts_upstream_of_or_within retina development in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: diencephalon/mesencephalon homeobox protein 1-A

Names: diencephalon/mesencephalon-expressed brain homeobox gene 1; homeoprotein Mbx; orthodenticle homolog 3; paired homeobox protein 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_152977.1 → NP_694509.1 diencephalon/mesencephalon homeobox protein 1-A isoform Mbx-L

See identical proteins and their annotated locations for NP_694509.1

Status: PROVISIONAL

Description

Transcript Variant: This variant (Mbx-L) represents the longer transcript and encodes the longer isoform (Mbx-L).

Source sequence(s)

AF398525

UniProtKB/Swiss-Prot

Q8JI09, Q8JI10

Conserved Domains (1) summary

pfam00046
Location:74 → 127

Homeobox; Homeobox domain
NM_178163.2 → NP_835457.2 diencephalon/mesencephalon homeobox protein 1-A isoform Mbx-S

See identical proteins and their annotated locations for NP_835457.2

Status: PROVISIONAL

Description

Transcript Variant: This variant (Mbx-S) uses an alternate splice site in the central coding region, compared to variant Mbx-L. The encoded isoform Mbx-S is shorter than isoform Mbx-L.

Source sequence(s)

AF398526

UniProtKB/TrEMBL

A4IG24

Related

ENSDARP00000106835.2, ENSDART00000128535.3

Conserved Domains (1) summary

pfam00046
Location:69 → 122

Homeobox; Homeobox domain