rab5c RAB5C, member RAS oncogene family [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: rab5cprovided by ZNC
Official Full Name: RAB5C, member RAS oncogene familyprovided by ZNC
Primary source: ZFIN:ZDB-GENE-031118-30
See related: Ensembl:ENSDARG00000026712 AllianceGenome:ZFIN:ZDB-GENE-031118-30
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: wu:fb98b08; wu:fi16g01
Summary: Predicted to enable GTPase activity. Involved in hematopoietic stem cell proliferation. Acts upstream of or within several processes, including endothelial tip cell filopodium assembly; regulation of cell migration involved in sprouting angiogenesis; and regulation of signal transduction. Located in early endosome. Is expressed in axial vasculature; blood; and intermediate cell mass of mesoderm. Orthologous to human RAB5C (RAB5C, member RAS oncogene family). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 3

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	3	NC_007114.7 (17615573..17651855)
105	previous assembly	GRCz10 (GCF_000002035.5)	3	NC_007114.6 (17465773..17502055)

Chromosome 3 - NC_007114.7 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?

The endosomal RIN2/Rab5C machinery prevents VEGFR2 degradation to control gene expression and tip cell identity during angiogenesis.
Title: The endosomal RIN2/Rab5C machinery prevents VEGFR2 degradation to control gene expression and tip cell identity during angiogenesis.
The established transgenic lines ubiquitously express EGFP fusions of Rab5c (early endosomes), Rab11a (recycling endosomes), and Rab7 (late endosomes) to study localization and dynamics during development.
Title: Generation of Rab-based transgenic lines for in vivo studies of endosome biology in zebrafish.
Results suggest that Wnt11 controls tissue morphogenesis by modulating E-cadherin-mediated cell cohesion through Rab5c, a novel mechanism of Wnt signaling in gastrulation.
Title: Wnt11 functions in gastrulation by controlling cell cohesion through Rab5c and E-cadherin.

Submit: New GeneRIF Correction

General gene information

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Markers

fb98b08.x1 (e-PCR)
- UniSTS:203607

fb06b01.y1 (e-PCR)
- UniSTS:189913

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables G protein activity	IEA Inferred from Electronic Annotation more info
enables GTP binding	IEA Inferred from Electronic Annotation more info
enables GTPase activity	IBA Inferred from Biological aspect of Ancestor more info
enables GTPase activity	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell-cell adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endocytosis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within endothelial tip cell filopodium assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within gastrulation with mouth forming second	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in hematopoietic stem cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intracellular protein transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of Notch signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of cell migration involved in sprouting angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of endocytosis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of vascular endothelial growth factor receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in early endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in early endosome	IDA Inferred from Direct Assay more info	PubMed
located_in early endosome membrane	IEA Inferred from Electronic Annotation more info
is_active_in endocytic vesicle	IBA Inferred from Biological aspect of Ancestor more info
is_active_in endomembrane system	IBA Inferred from Biological aspect of Ancestor more info
located_in endosome	IDA Inferred from Direct Assay more info	PubMed
located_in endosome	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: ras-related protein Rab-5C

NP_958909.1

EC 3.6.5.2

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_201501.1 → NP_958909.1 ras-related protein Rab-5C

See identical proteins and their annotated locations for NP_958909.1

Status: PROVISIONAL

Source sequence(s)

BC045466

UniProtKB/TrEMBL

A0A2R8QTE3, F6NHM9, Q7ZVP2

Related

ENSDARP00000033828.4, ENSDART00000034536.7

Conserved Domains (2) summary

cd01860
Location:22 → 184

Rab5_related; Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

pfam00071
Location:24 → 185

Ras; Ras family