Rab3d RAB3D, member RAS oncogene family [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rab3dprovided by RGD
Official Full Name: RAB3D, member RAS oncogene familyprovided by RGD
Primary source: RGD:620924
See related: Ensembl:ENSRNOG00000011582 AllianceGenome:RGD:620924
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable GTP-dependent protein binding activity and myosin V binding activity. Predicted to be involved in several processes, including bone resorption; protein localization to plasma membrane; and secretion by cell. Predicted to act upstream of or within peptidyl-cysteine methylation. Located in transport vesicle. Orthologous to human RAB3D (RAB3D, member RAS oncogene family). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 88.8), Thymus (RPKM 56.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q13

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (28714706..28725379, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (20438622..20449269, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (22920238..22929368, complement)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Rab3D is not involved in agonist-induced exocytosis in AR42J cells. Instead, Rab3D may regulate amylase content in these cells.
Title: Rab3D regulates amylase levels, not agonist-induced amylase release, in AR42J cells.
These data suggest an implication of myosin Va and Rab3D in the maturation of SGs where they participate in overlapping but not identical tasks.
Title: Roles of myosin Va and Rab3D in membrane remodeling of immature secretory granules.
the present data suggest that Rab3D and rabphilin may regulate the secretory pathway at a much earlier stage than what has hitherto been assumed.
Title: Novel localization of Rab3D in rat intestinal goblet cells and Brunner's gland acinar cells suggests a role in early Golgi trafficking.
In parotid acini, Rab3D doesn't dissociate from cell membranes or redistribute to the plasma membrane during secretion, and may play an inhibitory role in regulated secretion.
Title: Rab3D redistribution and function in rat parotid acini.
pIgA-R traffics through postendosomal rab3D-, rab11a-, and syntaxin 2-associated compartments, implicating these proteins in the regulation of transcytosis.
Title: Intracellular accumulation of pIgA-R and regulators of transcytotic trafficking in cholestatic rat hepatocytes.
Localization of the small monomeric GTPases Rab3D and Rab3A in the AtT-20 rat pituitary cell line.
Title: Localization of the small monomeric GTPases Rab3D and Rab3A in the AtT-20 rat pituitary cell line.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables GTP binding	IEA Inferred from Electronic Annotation more info
enables GTP-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables GTPase activity	IBA Inferred from Biological aspect of Ancestor more info
enables myosin V binding	IBA Inferred from Biological aspect of Ancestor more info
enables myosin V binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in bone resorption	ISO Inferred from Sequence Orthology more info
involved_in exocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of regulated secretory pathway	ISO Inferred from Sequence Orthology more info
involved_in protein secretion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of exocytosis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasmic microtubule	ISO Inferred from Sequence Orthology more info
is_active_in endosome	IBA Inferred from Biological aspect of Ancestor more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in secretory vesicle	ISO Inferred from Sequence Orthology more info
is_active_in synaptic vesicle	IBA Inferred from Biological aspect of Ancestor more info
located_in zymogen granule	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: GTP-binding protein Rab-3D

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_080580.2 → NP_542147.1 GTP-binding protein Rab-3D

See identical proteins and their annotated locations for NP_542147.1

Status: PROVISIONAL

Source sequence(s)

BC081741

UniProtKB/Swiss-Prot

P35291, Q63942

UniProtKB/TrEMBL

A6JNV4

Related

ENSRNOP00000015609.3, ENSRNOT00000015609.6

Conserved Domains (2) summary

smart00175
Location:23 → 183

RAB; Rab subfamily of small GTPases

cd01865
Location:22 → 186

Rab3; Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086026.1 Reference GRCr8

Range

28714706..28725379 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006242594.5 → XP_006242656.1 GTP-binding protein Rab-3D isoform X2

See identical proteins and their annotated locations for XP_006242656.1

UniProtKB/Swiss-Prot

P35291, Q63942

UniProtKB/TrEMBL

A6JNV4

Conserved Domains (2) summary

smart00175
Location:23 → 183

RAB; Rab subfamily of small GTPases

cd01865
Location:22 → 186

Rab3; Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D
XM_006242593.3 → XP_006242655.1 GTP-binding protein Rab-3D isoform X1

Conserved Domains (2) summary

smart00175
Location:43 → 203

RAB; Rab subfamily of small GTPases

cd01865
Location:42 → 206

Rab3; Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D
XM_017595422.3 → XP_017450911.1 GTP-binding protein Rab-3D isoform X2

UniProtKB/Swiss-Prot

P35291, Q63942

UniProtKB/TrEMBL

A6JNV4

Conserved Domains (2) summary

smart00175
Location:23 → 183

RAB; Rab subfamily of small GTPases

cd01865
Location:22 → 186

Rab3; Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D