msx3 muscle segment homeobox 3 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: msx3provided by ZNC
Official Full Name: muscle segment homeobox 3provided by ZNC
Primary source: ZFIN:ZDB-GENE-980526-306
See related: Ensembl:ENSDARG00000015674 AllianceGenome:ZFIN:ZDB-GENE-980526-306
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: mshC; msxc; msh-C; msx-c; homeobox; zgc:86596
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. Acts upstream of or within otic placode formation. Predicted to be active in nucleus. Is expressed in several structures, including fin bud; germ ring; immature eye; median fin fold; and nervous system. [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 13

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	13	NC_007124.7 (24662238..24664669)
105	previous assembly	GRCz10 (GCF_000002035.5)	13	NC_007124.6 (24531788..24534219)

Chromosome 13 - NC_007124.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

Data suggest that mutual antagonism between MsxB, C, and E and Distal-less proteins achieves a balance of function required for normal preplacodal differentiation and placement of the neural-nonneural border.
Title: Zebrafish msxB, msxC and msxE function together to refine the neural-nonneural border and regulate cranial placodes and neural crest development.

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General gene information

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Markers

fb80d12.x1 (e-PCR)
- UniSTS:191554

fb80d12.x1 (e-PCR)
- UniSTS:191555

mshc (e-PCR)
- UniSTS:186992

msxc (e-PCR), detects polymorphism
- UniSTS:186994

fc66g03.y1 (e-PCR)
- UniSTS:194220

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 embryonic morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within otic placode formation	IGI Inferred from Genetic Interaction more info	PubMed
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

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

General protein information

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Preferred Names: homeobox protein MSH-C

Names: etID309953.13; muscle segment homeobox C

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.