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Aliases for RNF13 Gene

Aliases for RNF13 Gene

  • Ring Finger Protein 13 2 3
  • RING-Type E3 Ubiquitin Transferase RNF13 3 4
  • RING Finger Protein 13 4 5
  • RZF 3 4
  • E3 Ubiquitin-Protein Ligase RNF13 3
  • RING Zinc Finger Protein 3
  • EC 2.3.2.27 4

External Ids for RNF13 Gene

Previous GeneCards Identifiers for RNF13 Gene

  • GC03P146460
  • GC03P150415
  • GC03P150812
  • GC03P150851
  • GC03P151013
  • GC03P149531
  • GC03P146902

Summaries for RNF13 Gene

Entrez Gene Summary for RNF13 Gene

  • The protein encoded by this gene contains a RING zinc finger, a motif known to be involved in protein-protein interactions. The specific function of this gene has not yet been determined. Alternatively spliced transcript variants that encode the same protein have been reported. A pseudogene, which is also located on chromosome 3, has been defined for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for RNF13 Gene

RNF13 (Ring Finger Protein 13) is a Protein Coding gene. GO annotations related to this gene include ligase activity and ubiquitin-protein transferase activity. An important paralog of this gene is RNF167.

UniProtKB/Swiss-Prot for RNF13 Gene

  • E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.

Gene Wiki entry for RNF13 Gene

Additional gene information for RNF13 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RNF13 Gene

Genomics for RNF13 Gene

Regulatory Elements for RNF13 Gene

Enhancers for RNF13 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH03H149811 1.5 FANTOM5 ENCODE 23.5 +2.4 2378 5 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 ZNF143 FOS PFN2 RNF13 COMMD2 TSC22D2 PPIAP73 RNU6-720P
GH03H149809 0.6 FANTOM5 19.5 -2.5 -2519 0 PRDM6 ATF2 ZNF18 RNF13 RNU6-507P
GH03H149780 0.9 Ensembl ENCODE 12.9 -29.7 -29665 4 JUN CEBPB JUNB USF2 BATF JUND GATA3 IKZF1 ETV6 PFN2 RNF13 WWTR1 WWTR1-AS1 PPIAP73 RNU6-507P
GH03H149506 1.6 FANTOM5 Ensembl ENCODE dbSUPER 3.9 -305.1 -305065 2 ESRRA FOXA2 JUN MAX EBF1 RARA ETS1 CTBP1 GATA3 RCOR1 COMMD2 WWTR1 TM4SF4 WWTR1-AS1 RNF13 LOC100421817 RNU6-1098P
GH03H149874 0.3 FANTOM5 17.6 +62.2 62210 0 RNF13 RNU6-720P
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RNF13 on UCSC Golden Path with GeneCards custom track

Promoters for RNF13 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000160049 1216 2601 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 ZNF143 FOS

Genomic Location for RNF13 Gene

Chromosome:
3
Start:
149,812,484 bp from pter
End:
149,962,139 bp from pter
Size:
149,656 bases
Orientation:
Plus strand

Genomic View for RNF13 Gene

Genes around RNF13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RNF13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RNF13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNF13 Gene

Proteins for RNF13 Gene

  • Protein details for RNF13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O43567-RNF13_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase RNF13
    Protein Accession:
    O43567
    Secondary Accessions:
    • A6NC87
    • B3KR12
    • Q05D66
    • Q6IBJ9

    Protein attributes for RNF13 Gene

    Size:
    381 amino acids
    Molecular mass:
    42814 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH17878.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305};

    Alternative splice isoforms for RNF13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RNF13 Gene

Post-translational modifications for RNF13 Gene

No data available for DME Specific Peptides for RNF13 Gene

Domains & Families for RNF13 Gene

Gene Families for RNF13 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for RNF13 Gene

Graphical View of Domain Structure for InterPro Entry

O43567

UniProtKB/Swiss-Prot:

RNF13_HUMAN :
  • The RING-type zinc finger domain is required for E3 ligase activity.
Domain:
  • The RING-type zinc finger domain is required for E3 ligase activity.
genes like me logo Genes that share domains with RNF13: view

Function for RNF13 Gene

Molecular function for RNF13 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.
UniProtKB/Swiss-Prot Function:
E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.

Enzyme Numbers (IUBMB) for RNF13 Gene

Phenotypes From GWAS Catalog for RNF13 Gene

Gene Ontology (GO) - Molecular Function for RNF13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity ISS --
GO:0005515 protein binding IPI 19690564
GO:0016740 transferase activity IEA --
GO:0046872 metal ion binding IEA --
GO:0061630 ubiquitin protein ligase activity IEA --
genes like me logo Genes that share ontologies with RNF13: view
genes like me logo Genes that share phenotypes with RNF13: view

Animal Models for RNF13 Gene

MGI Knock Outs for RNF13:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RNF13
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RNF13 Gene

Localization for RNF13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RNF13 Gene

Endoplasmic reticulum membrane. Golgi apparatus membrane. Late endosome membrane; Single-pass membrane protein. Lysosome membrane. Nucleus inner membrane. Note=Under certain conditions, relocalizes to recycling endosomes and to the inner nuclear membrane. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RNF13 gene
Compartment Confidence
lysosome 5
endosome 5
nucleus 4
cytosol 4
plasma membrane 3
endoplasmic reticulum 3
golgi apparatus 3
extracellular 2
peroxisome 2
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RNF13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA --
GO:0005634 nucleus IEA --
GO:0005637 nuclear inner membrane IEA --
GO:0005654 nucleoplasm IDA --
GO:0005764 lysosome IEA --
genes like me logo Genes that share ontologies with RNF13: view

Pathways & Interactions for RNF13 Gene

SuperPathways for RNF13 Gene

No Data Available

UniProtKB/Swiss-Prot O43567-RNF13_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for RNF13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016567 protein ubiquitination IEA --
GO:0051865 protein autoubiquitination ISS --
genes like me logo Genes that share ontologies with RNF13: view

No data available for Pathways by source and SIGNOR curated interactions for RNF13 Gene

Drugs & Compounds for RNF13 Gene

(1) Drugs for RNF13 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with RNF13: view

Transcripts for RNF13 Gene

Unigene Clusters for RNF13 Gene

Ring finger protein 13:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RNF13
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for RNF13 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11
SP1:
SP2: - - -
SP3: - - -
SP4:

Relevant External Links for RNF13 Gene

GeneLoc Exon Structure for
RNF13
ECgene alternative splicing isoforms for
RNF13

Expression for RNF13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RNF13 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RNF13 Gene

This gene is overexpressed in Brain - Spinal cord (cervical c-1) (x4.2).

Protein differential expression in normal tissues from HIPED for RNF13 Gene

This gene is overexpressed in Heart (33.5), Peripheral blood mononuclear cells (9.8), Skin (8.3), and Testis (7.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RNF13 Gene



NURSA nuclear receptor signaling pathways regulating expression of RNF13 Gene:

RNF13

SOURCE GeneReport for Unigene cluster for RNF13 Gene:

Hs.12333

mRNA Expression by UniProt/SwissProt for RNF13 Gene:

O43567-RNF13_HUMAN
Tissue specificity: Widely expressed (at protein level). In normal pancreas, expressed in islets, but not in ducts, nor in acini (at protein level).

Evidence on tissue expression from TISSUES for RNF13 Gene

  • Nervous system(4.9)
  • Muscle(4.3)
  • Spleen(4.3)
  • Lung(2.7)
genes like me logo Genes that share expression patterns with RNF13: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for RNF13 Gene

Orthologs for RNF13 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RNF13 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RNF13 33 34
  • 100 (n)
cow
(Bos Taurus)
Mammalia RNF13 33 34
  • 95.61 (n)
dog
(Canis familiaris)
Mammalia RNF13 33 34
  • 92.83 (n)
oppossum
(Monodelphis domestica)
Mammalia RNF13 34
  • 91 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RNF13 34
  • 90 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rnf13 33 16 34
  • 89.59 (n)
chicken
(Gallus gallus)
Aves RNF13 33 34
  • 80.4 (n)
lizard
(Anolis carolinensis)
Reptilia RNF13 34
  • 89 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rnf13 33
  • 70.95 (n)
African clawed frog
(Xenopus laevis)
Amphibia MGC68556 33
zebrafish
(Danio rerio)
Actinopterygii rnf13 33
  • 68.98 (n)
zgc55660 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002028 33
  • 45.56 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG10277 35 34
  • 39 (a)
worm
(Caenorhabditis elegans)
Secernentea C18B12.4 34
  • 22 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons RMR1 33
  • 47.84 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.598 34
  • 32 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.7712 33
Species where no ortholog for RNF13 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • 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)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RNF13 Gene

ENSEMBL:
Gene Tree for RNF13 (if available)
TreeFam:
Gene Tree for RNF13 (if available)

Paralogs for RNF13 Gene

Pseudogenes.org Pseudogenes for RNF13 Gene

genes like me logo Genes that share paralogs with RNF13: view

Variants for RNF13 Gene

Sequence variations from dbSNP and Humsavar for RNF13 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs1000004986 -- 149,959,154(+) AGTGG(A/G)AAAAA intron-variant
rs1000010526 -- 149,951,807(+) ACTGT(A/C/T)ATGTC intron-variant
rs1000014251 -- 149,955,393(+) CCAGG(A/C/G)CTTGG intron-variant, upstream-variant-2KB
rs1000030495 -- 149,933,275(+) TTTTT(-/TTTA)AATTG intron-variant
rs1000031553 -- 149,819,238(+) TCAAG(C/T)TAAAT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RNF13 Gene

Variant ID Type Subtype PubMed ID
esv1516102 CNV insertion 17803354
esv2597752 CNV deletion 19546169
esv2664861 CNV deletion 23128226
esv2676965 CNV deletion 23128226
esv3353996 CNV insertion 20981092
esv34142 CNV loss 18971310
esv3562714 CNV deletion 23714750
esv3598149 CNV loss 21293372
esv3598150 CNV loss 21293372
esv3598151 CNV loss 21293372
esv993688 CNV insertion 20482838
nsv1110769 CNV insertion 24896259
nsv1125783 CNV tandem duplication 24896259
nsv965222 CNV duplication 23825009

Variation tolerance for RNF13 Gene

Residual Variation Intolerance Score: 49.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.93; 49.01% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RNF13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RNF13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RNF13 Gene

Disorders for RNF13 Gene

Relevant External Links for RNF13

Genetic Association Database (GAD)
RNF13
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RNF13

No disorders were found for RNF13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RNF13 Gene

Publications for RNF13 Gene

  1. Nuclear targeting of an endosomal E3 ubiquitin ligase. (PMID: 20230530) Bocock JP … Erickson AH (Traffic (Copenhagen, Denmark) 2010) 3 22 60
  2. RNF13: a novel RING-type ubiquitin ligase over-expressed in pancreatic cancer. (PMID: 18794910) Zhang Q … Zhu D (Cell research 2009) 3 4 60
  3. Integral and associated lysosomal membrane proteins. (PMID: 17897319) Schröder B … Hasilik A (Traffic (Copenhagen, Denmark) 2007) 3 4 60
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60

Products for RNF13 Gene

Sources for RNF13 Gene

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