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Def8 differentially expressed in FDCP 8 homolog [ Rattus norvegicus (Norway rat) ]

Gene ID: 307973, updated on 5-Mar-2024

Summary

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Official Symbol
Def8provided by RGD
Official Full Name
differentially expressed in FDCP 8 homologprovided by RGD
Primary source
RGD:1309008
See related
Ensembl:ENSRNOG00000000264 AllianceGenome:RGD:1309008
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 metal ion binding activity. Predicted to be involved in lysosome localization; positive regulation of bone resorption; and positive regulation of ruffle assembly. Orthologous to human DEF8 (differentially expressed in FDCP 8 homolog). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 177.3), Liver (RPKM 95.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Def8 in Genome Data Viewer
Location:
19q12
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (68383293..68404133)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (51474783..51495638)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (56238353..56259867)

Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene melanocortin 1 receptor Neighboring gene tubulin, beta 3 class III Neighboring gene U5 spliceosomal RNA Neighboring gene AFG3 (ATPase family gene 3)-like 1 Neighboring gene dysbindin domain containing 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. PLEKHM1/DEF8/RAB7 complex regulates lysosome positioning and bone homeostasis. Fujiwara T, et al. JCI Insight, 2016 Oct 20. PMID 27777970, Free PMC Article
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in lysosome localization ISO
Inferred from Sequence Orthology
more info
  
involved_in lysosome localization ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of bone resorption ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of bone resorption ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of ruffle assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of ruffle assembly ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
differentially expressed in FDCP 8 homolog
Names
DEF-8

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_001024774.1 → NP_001019945.1  differentially expressed in FDCP 8 homolog

    See identical proteins and their annotated locations for NP_001019945.1

    Status: PROVISIONAL

    Source sequence(s)
    BC097376
    UniProtKB/Swiss-Prot
    Q4V8I4
    UniProtKB/TrEMBL
    A6IZY4
    Conserved Domains (2) summary
    pfam13901
    Location:236 → 433
    zf-RING_9; Putative zinc-RING and/or ribbon
    cd20819
    Location:134 → 194
    C1_DEF8; protein kinase C conserved region 1 (C1 domain) found in differentially expressed in FDCP 8 (DEF-8) and similar proteins

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_086037.1 Reference GRCr8

    Range
    68383293..68404133
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006255769.3 → XP_006255831.1  differentially expressed in FDCP 8 homolog isoform X1

    See identical proteins and their annotated locations for XP_006255831.1

    UniProtKB/Swiss-Prot
    Q4V8I4
    UniProtKB/TrEMBL
    A6IZY4
    Related
    ENSRNOP00000000281.5
    Conserved Domains (2) summary
    pfam13901
    Location:236 → 433
    zf-RING_9; Putative zinc-RING and/or ribbon
    cd20819
    Location:134 → 194
    C1_DEF8; protein kinase C conserved region 1 (C1 domain) found in differentially expressed in FDCP 8 (DEF-8) and similar proteins
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q4V8I4.1 GenPept UniProtKB/Swiss-Prot:Q4V8I4

Gene LinkOut

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