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Vac14 Vac14, PIKFYVE complex component [ Rattus norvegicus (Norway rat) ]

Gene ID: 307842, updated on 18-Apr-2019

Summary

Official Symbol
Vac14provided by RGD
Official Full Name
Vac14, PIKFYVE complex componentprovided by RGD
Primary source
RGD:631410
See related
Ensembl:ENSRNOG00000017219
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
a putative cytoskeletal interacting protein; mutation of gene may be associated with lethal communicating hydrocephalus with perinatal onset [RGD, Feb 2006]
Annotation information
Annotation category: partial on reference assembly
Expression
Biased expression in Spleen (RPKM 93.9), Kidney (RPKM 82.6) and 9 other tissues See more
Orthologs

Genomic context

See Vac14 in Genome Data Viewer
Location:
19q12
Exon count:
19
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (40927007..41029206, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 19 NC_005118.3 (51753772..51855971, complement)

Chromosome 19 - NC_005118.4Genomic Context describing neighboring genes Neighboring gene 60S ribosomal protein L29 pseudogene Neighboring gene interleukin 34 Neighboring gene MTSS I-BAR domain containing 2 Neighboring gene transfer RNA glycine (anticodon GCC) Neighboring gene transfer RNA glycine (anticodon GCC) Neighboring gene Hydin, axonemal central pair apparatus protein Neighboring gene cap methyltransferase 2

Genomic regions, transcripts, and products

Expression

  • 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

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Process Evidence Code Pubs
phosphatidylinositol biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
PAS complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
endosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endosome membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
extrinsic component of vacuolar membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
protein VAC14 homolog
Names
Vac14 homolog
vacuole 14 protein

NCBI Reference Sequences (RefSeq)

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_177930.2NP_808791.1  protein VAC14 homolog

    See identical proteins and their annotated locations for NP_808791.1

    Status: PROVISIONAL

    Source sequence(s)
    AY220476
    UniProtKB/Swiss-Prot
    Q80W92
    Related
    ENSRNOP00000023383.4, ENSRNOT00000023383.5
    Conserved Domains (3) summary
    pfam11916
    Location:544718
    Vac14_Fig4_bd; Vacuolar protein 14 C-terminal Fig4p binding
    pfam12755
    Location:67163
    Vac14_Fab1_bd; Vacuolar 14 Fab1-binding region
    sd00044
    Location:94122
    HEAT; HEAT repeat [structural motif]

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005118.4 Reference Rnor_6.0 Primary Assembly

    Range
    40927007..41029206 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000087.1 Alternate Rn_Celera

    Range
    37985831..38087096
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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