noto notochord homeobox [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: notoprovided by ZNC
Official Full Name: notochord homeoboxprovided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-75
See related: Ensembl:ENSDARG00000021201 AllianceGenome:ZFIN:ZDB-GENE-990415-75
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: flh; Znot
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 animal organ development; axial mesoderm morphogenesis; and floor plate formation. Predicted to be active in nucleus. Is expressed in several structures, including anterior neural keel; forebrain; germ ring; mesoderm; and tail bud. Orthologous to human NOTO (notochord homeobox). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 13

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	13	NC_007124.7 (14976146..14978104)
105	previous assembly	GRCz10 (GCF_000002035.5)	13	NC_007124.6 (14845154..14847112)

Chromosome 13 - NC_007124.7 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?

Flh and Tbx2b regulate separate programs of pineal and parapineal development
Title: Formation of the asymmetric pineal complex in zebrafish requires two independently acting transcription factors.

Submit: New GeneRIF Correction

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 cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within adrenal gland development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within axial mesoderm morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within axial mesoderm morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within axial mesoderm structural organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within axial mesodermal cell fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in central nervous system development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within determination of heart left/right asymmetry	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within determination of left/right asymmetry in lateral mesoderm	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within determination of left/right symmetry	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within developmental pigmentation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic heart tube development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic heart tube morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endocardium morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within floor plate development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within floor plate formation	IGI Inferred from Genetic Interaction more info
acts_upstream_of_or_within glomerulus development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within heart looping	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within notochord cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within notochord development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within notochord formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pineal gland development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within pineal gland development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pronephric glomerulus morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of BMP signaling pathway	IMP Inferred from Mutant Phenotype 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
acts_upstream_of_or_within skeletal muscle fiber differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within somite development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within somite specification	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	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: homeobox protein notochord

Names: floating head

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_131055.1 → NP_571130.1 homeobox protein notochord

See identical proteins and their annotated locations for NP_571130.1

Status: PROVISIONAL

Source sequence(s)

L48017

UniProtKB/TrEMBL

Q90461

Related

ENSDARP00000022555.7, ENSDART00000011520.8

Conserved Domains (2) summary

COG5576
Location:79 → 193

COG5576; Homeodomain-containing transcription factor [Transcription]

pfam00046
Location:138 → 190

Homeobox; Homeobox domain