dlc deltaC [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: dlcprovided by ZNC
Official Full Name: deltaCprovided by ZNC
Primary source: ZFIN:ZDB-GENE-000125-4
See related: Ensembl:ENSDARG00000002336 AllianceGenome:ZFIN:ZDB-GENE-000125-4
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: delC
Summary: Enables PDZ domain binding activity and identical protein binding activity. Acts upstream of or within several processes, including blood vessel development; neuron differentiation; and somite development. Located in perinuclear region of cytoplasm and plasma membrane. Is expressed in several structures, including immature eye; integument; mesoderm; nervous system; and trunk. Human ortholog(s) of this gene implicated in dysostosis and spondylocostal dysostosis 1. Orthologous to human DLL3 (delta like canonical Notch ligand 3). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 15

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	15	NC_007126.7 (20463448..20468302, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	15	NC_007126.6 (20527716..20532570, complement)

Chromosome 15 - NC_007126.7 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?

Fgfr4 mediates a signal-transduction pathway between Wnt16 and Dlc, but not Dld, to regulate haematopoietic stem cells specification.
Title: FGF signalling specifies haematopoietic stem cells through its regulation of somitic Notch signalling.
Ablation of xanthophores in yellow stripes induced melanophore death in black stripes, suggesting that melanophores require a survival signal from distant xanthophores. DeltaC and notch1a were expressed by xanthophores and melanophores, respectively.
Title: Involvement of Delta/Notch signaling in zebrafish adult pigment stripe patterning.
DeltaC and DeltaD interact as Notch ligands in the zebrafish segmentation clock.
Title: DeltaC and DeltaD interact as Notch ligands in the zebrafish segmentation clock.
Data show that two deltaC splice-variants have distinct signaling abilities during somitogenesis and midline patterning.
Title: Two deltaC splice-variants have distinct signaling abilities during somitogenesis and midline patterning.
Notch signalling via DeltaC keeps the oscillations of neighbouring cells in synchrony.
Title: Setting the tempo in development: an investigation of the zebrafish somite clock mechanism.
In zebrafish embryos oscillations of adjacent cells are synchronized and amplified by deltaC in the posterior presomitic mesoderm as cell movement subsides and cells maintain stable neighbour relationships.
Title: Priming, initiation and synchronization of the segmentation clock by deltaD and deltaC.
Expression of deltaC oscillates in the presomitic mesoderm; analysis of its oscillation in relation to that of other oscillating genes in the PSM reveals differences in subcellular localization of the oscillating mRNAs in individual cells
Title: beamter/deltaC and the role of Notch ligands in the zebrafish somite segmentation, hindbrain neurogenesis and hypochord differentiation.
Data show that deltaC is required for coherence of wavelike expression domains of cyclic genes her1 and her7 and maintenance of their expression levels, as well as for cyclic transcription of deltaC itself.
Title: Cooperative function of deltaC and her7 in anterior segment formation.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables Notch binding	IBA Inferred from Biological aspect of Ancestor more info
enables PDZ domain binding	IDA Inferred from Direct Assay more info	PubMed
enables PDZ domain binding	IPI Inferred from Physical Interaction more info	PubMed
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in Notch signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within Notch signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within Notch signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in Notch signaling pathway	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within arterial endothelial cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within blood vessel morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell communication	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within dorsal aorta development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of hematopoietic progenitor cell differentiation	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within hematopoietic stem cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within hematopoietic stem cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of Notch signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within neuron development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within sclerotome development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within somite specification	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within somitogenesis	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within somitogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within somitogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ventral spinal cord interneuron differentiation	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	IGI Inferred from Genetic Interaction more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: delta-like protein C

Names: bea; beamter

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_130944.1 → NP_571019.1 delta-like protein C precursor

See identical proteins and their annotated locations for NP_571019.1

Status: PROVISIONAL

Source sequence(s)

AF146429

UniProtKB/Swiss-Prot

Q9IAT6

UniProtKB/TrEMBL

A4JYS0

Related

ENSDARP00000018643.7, ENSDART00000018514.8

Conserved Domains (3) summary

cd00054
Location:265 → 303

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

pfam01414
Location:136 → 198

DSL; Delta serrate ligand

pfam07657
Location:21 → 79

MNNL; N terminus of Notch ligand