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Aliases for RNF39 Gene

Aliases for RNF39 Gene

  • Ring Finger Protein 39 2 3
  • HZFW 3 4 6
  • Protein HZFw 3 4
  • LIRF 3 6
  • HZF 3 6
  • LTP (Long-Term Potentiation) Induced RING Finger Protein 3

External Ids for RNF39 Gene

Summaries for RNF39 Gene

Entrez Gene Summary for RNF39 Gene

  • This gene lies within the major histocompatibility complex class I region on chromosome 6. Studies of a similar rat protein suggest that this gene encodes a protein that plays a role in an early phase of synaptic plasticity. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for RNF39 Gene

RNF39 (Ring Finger Protein 39) is a Protein Coding gene.

UniProtKB/Swiss-Prot for RNF39 Gene

  • May play a role in prolonged long term-potentiation (LTP) maintenance.

Gene Wiki entry for RNF39 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RNF39 Gene

Genomics for RNF39 Gene

Genomic Location for RNF39 Gene

Start:
30,070,266 bp from pter
End:
30,075,887 bp from pter
Size:
5,622 bases
Orientation:
Minus strand

Genomic View for RNF39 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RNF39 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Regulatory Elements for RNF39 Gene

Proteins for RNF39 Gene

  • Protein details for RNF39 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H2S5-RNF39_HUMAN
    Recommended name:
    RING finger protein 39
    Protein Accession:
    Q9H2S5
    Secondary Accessions:
    • A2BEK3
    • A6NCD6
    • B0S858
    • Q5SPM8
    • Q5SPM9
    • Q5SPN0
    • Q5SRJ9
    • Q5SRK1
    • Q5SS29
    • Q9H2S3
    • Q9H2S4

    Protein attributes for RNF39 Gene

    Size:
    420 amino acids
    Molecular mass:
    45525 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for RNF39 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RNF39 Gene

Proteomics data for RNF39 Gene at MOPED

Post-translational modifications for RNF39 Gene

No Post-translational modifications

Other Protein References for RNF39 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RNF39 Gene

Domains for RNF39 Gene

Gene Families for RNF39 Gene

HGNC:
  • RNF :RING-type (C3HC4) zinc fingers

UniProtKB/Swiss-Prot:

RNF39_HUMAN
Domain:
  • Contains 1 B30.2/SPRY domain.:
    • Q9H2S5
Similarity:
  • Contains 1 RING-type zinc finger.:
    • Q9H2S5
genes like me logo Genes that share domains with RNF39: view

Function for RNF39 Gene

Molecular function for RNF39 Gene

UniProtKB/Swiss-Prot Function: May play a role in prolonged long term-potentiation (LTP) maintenance.

Gene Ontology (GO) - Molecular Function for RNF39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding --
genes like me logo Genes that share ontologies with RNF39: view

Phenotypes for RNF39 Gene

GenomeRNAi human phenotypes for RNF39:
genes like me logo Genes that share phenotypes with RNF39: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for RNF39 Gene

Localization for RNF39 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RNF39 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RNF39 Gene COMPARTMENTS Subcellular localization image for RNF39 gene
Compartment Confidence
nucleus 3
cytosol 2
mitochondrion 1

Gene Ontology (GO) - Cellular Components for RNF39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with RNF39: view

Pathways for RNF39 Gene

SuperPathways for RNF39 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RNF39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with RNF39: view

No data available for Pathways by source for RNF39 Gene

Transcripts for RNF39 Gene

mRNA/cDNA for RNF39 Gene

Unigene Clusters for RNF39 Gene

Ring finger protein 39:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RNF39 Gene

No ASD Table

Relevant External Links for RNF39 Gene

GeneLoc Exon Structure for
RNF39
ECgene alternative splicing isoforms for
RNF39

Expression for RNF39 Gene

mRNA expression in normal human tissues for RNF39 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RNF39 Gene

This gene is overexpressed in Skin - Not Sun Exposed (Suprapubic) (11.7), Skin - Sun Exposed (Lower leg) (10.9), Esophagus - Mucosa (5.7), Minor Salivary Gland (5.2), and Vagina (4.1).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for RNF39 Gene

SOURCE GeneReport for Unigene cluster for RNF39 Gene Hs.121178

mRNA Expression by UniProt/SwissProt for RNF39 Gene

Q9H2S5-RNF39_HUMAN
Tissue specificity: Expressed in testis.
genes like me logo Genes that share expressions with RNF39: view

Orthologs for RNF39 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RNF39 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RNF39 36
  • 99.44 (n)
  • 99.29 (a)
RNF39 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RNF39 36
  • 87.33 (n)
  • 85.43 (a)
dog
(Canis familiaris)
Mammalia RNF39 36
  • 85.19 (n)
  • 86.61 (a)
RNF39 37
  • 85 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rnf39 36
  • 82.48 (n)
  • 83.24 (a)
Rnf39 16
Rnf39 37
  • 83 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RNF39 37
  • 55 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rnf39 36
  • 81.63 (n)
  • 81.82 (a)
lizard
(Anolis carolinensis)
Reptilia -- 37
  • 30 (a)
OneToMany
-- 37
  • 21 (a)
OneToMany
-- 37
  • 34 (a)
OneToMany
Species with no ortholog for RNF39:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for RNF39 Gene

ENSEMBL:
Gene Tree for RNF39 (if available)
TreeFam:
Gene Tree for RNF39 (if available)

Paralogs for RNF39 Gene

Selected SIMAP similar genes for RNF39 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with RNF39: view

No data available for Paralogs for RNF39 Gene

Variants for RNF39 Gene

Sequence variations from dbSNP and Humsavar for RNF39 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type MAF
rs1057539 - 30,071,572(-) GCTTC(A/G)ATCAG missense, reference
rs1150735 -- 30,077,422(-) caggc(C/T)gatca upstream-variant-2KB
rs1150736 -- 30,075,178(-) GGGAG(A/G)TTCCC intron-variant
rs1150737 -- 30,074,752(-) GGCGA(C/G)GGCAG intron-variant
rs1245369 -- 30,073,931(-) TGTGT(C/T)TGGTC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RNF39 Gene

Variant ID Type Subtype PubMed ID
esv2731777 CNV Deletion 23290073
nsv884049 CNV Loss 21882294

Relevant External Links for RNF39 Gene

HapMap Linkage Disequilibrium report
RNF39

Disorders for RNF39 Gene

Relevant External Links for RNF39

Genetic Association Database (GAD)
RNF39
Human Genome Epidemiology (HuGE) Navigator
RNF39
genes like me logo Genes that share disorders with RNF39: view

No data available for UniProtKB/Swiss-Prot for RNF39 Gene

Publications for RNF39 Gene

  1. Transcriptional analysis of the 69-kb sequence centromeric to HLA-J: a dense and complex structure of five genes. (PMID: 11130983) Coriton O. … Mosser J. (Mamm. Genome 2000) 2 3 4
  2. LIRF, a gene induced during hippocampal long-term potentiation as an immediate-early gene, encodes a novel RING finger protein. (PMID: 11716498) Matsuo R. … Inokuchi K. (Biochem. Biophys. Res. Commun. 2001) 2 3
  3. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall A.J. … Beck S. (Nature 2003) 3 4
  4. Association of HLA-C and HCP5 gene regions with the clinical course of HIV-1 infection. (PMID: 19050382) van Manen D. … Schuitemaker H. (AIDS 2009) 3 49
  5. Genomewide association study of an AIDS-nonprogression cohort emphasizes the role played by HLA genes (ANRS Genomewide Association Study 02). (PMID: 19115949) Limou S. … Zagury J.F. (J. Infect. Dis. 2009) 3 49

Products for RNF39 Gene

Sources for RNF39 Gene

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