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Vapb VAMP associated protein B and C [ Rattus norvegicus (Norway rat) ]

Gene ID: 60431, updated on 2-Nov-2024

Summary

Official Symbol
Vapbprovided by RGD
Official Full Name
VAMP associated protein B and Cprovided by RGD
Primary source
RGD:68326
See related
EnsemblRapid:ENSRNOG00000005331 AllianceGenome:RGD:68326
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
VAP-B; VAMP-B
Summary
Predicted to enable several functions, including FFAT motif binding activity; protein dimerization activity; and tubulin binding activity. Predicted to be involved in several processes, including IRE1-mediated unfolded protein response; endoplasmic reticulum organization; and modulation by host of viral genome replication. Is active in several cellular components, including endoplasmic reticulum; glutamatergic synapse; and postsynapse. Human ortholog(s) of this gene implicated in amyotrophic lateral sclerosis; amyotrophic lateral sclerosis type 8; autosomal dominant adult-onset proximal spinal muscular atrophy; and spinal muscular atrophy. Orthologous to human VAPB (VAMP associated protein B and C). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Adrenal (RPKM 191.4), Muscle (RPKM 190.8) and 9 other tissues See more
Orthologs
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Genomic context

See Vapb in Genome Data Viewer
Location:
3q42
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (182954247..182997018)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (162535974..162578747)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (171832558..171871042)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486505 Neighboring gene RAB22A, member RAS oncogene family Neighboring gene APC down-regulated 1 like Neighboring gene uncharacterized LOC134486506

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Clone Names

  • MGC72459

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables FFAT motif binding ISO
Inferred from Sequence Orthology
more info
 
enables beta-tubulin binding ISO
Inferred from Sequence Orthology
more info
 
enables beta-tubulin binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables enzyme binding ISO
Inferred from Sequence Orthology
more info
 
enables enzyme binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables microtubule binding ISO
Inferred from Sequence Orthology
more info
 
enables protein heterodimerization activity ISO
Inferred from Sequence Orthology
more info
 
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
 
enables protein homodimerization activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protein-membrane adaptor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
Process Evidence Code Pubs
involved_in COPII-coated vesicle budding ISO
Inferred from Sequence Orthology
more info
 
involved_in IRE1-mediated unfolded protein response ISO
Inferred from Sequence Orthology
more info
 
involved_in IRE1-mediated unfolded protein response ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in biological_process ND
No biological Data available
more info
 
involved_in cholesterol transport ISO
Inferred from Sequence Orthology
more info
 
involved_in endoplasmic reticulum membrane organization IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in endoplasmic reticulum organization ISO
Inferred from Sequence Orthology
more info
 
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport ISO
Inferred from Sequence Orthology
more info
 
involved_in endoplasmic reticulum unfolded protein response ISO
Inferred from Sequence Orthology
more info
 
involved_in endoplasmic reticulum unfolded protein response ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in endoplasmic reticulum-plasma membrane tethering IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in intracellular calcium ion homeostasis ISO
Inferred from Sequence Orthology
more info
 
involved_in intracellular calcium ion homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in modulation by host of viral RNA genome replication ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation by host of viral genome replication ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation by virus of viral protein levels in host cell ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation by host of viral genome replication ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of viral genome replication ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of viral genome replication ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in suppression of viral release by host ISO
Inferred from Sequence Orthology
more info
 
involved_in viral release from host cell ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
 
located_in Golgi apparatus ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
 
located_in endoplasmic reticulum ISS
Inferred from Sequence or Structural Similarity
more info
 
NOT located_in endoplasmic reticulum exit site ISO
Inferred from Sequence Orthology
more info
 
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in endoplasmic reticulum membrane ISO
Inferred from Sequence Orthology
more info
 
located_in endoplasmic reticulum membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in postsynapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in presynapse IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
vesicle-associated membrane protein-associated protein B
Names
VAMP (vesicle-associated membrane protein)-associated protein B and C
VAMP-associated protein B
vesicle-associated membrane protein, associated protein B and 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.

mRNA and Protein(s)

  1. NM_021847.4NP_068619.1  vesicle-associated membrane protein-associated protein B

    See identical proteins and their annotated locations for NP_068619.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000003
    UniProtKB/Swiss-Prot
    Q9Z269
    UniProtKB/TrEMBL
    A6KL13
    Related
    ENSRNOP00000106660.1, ENSRNOT00000122080.1
    Conserved Domains (2) summary
    pfam00635
    Location:8111
    Motile_Sperm; MSP (Major sperm protein) domain
    cl19864
    Location:65222
    Mu-like_Pro; Mu-like prophage I protein

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

  1. NC_086021.1 Reference GRCr8

    Range
    182954247..182997018
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006235706.5XP_006235768.4  vesicle-associated membrane protein-associated protein B isoform X1

    Related
    ENSRNOP00000007554.3, ENSRNOT00000007554.6