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Aliases for TRIM39-RPP21 Gene

Aliases for TRIM39-RPP21 Gene

  • TRIM39-RPP21 Readthrough 2 3 5
  • Rpp21 Domain-Containing TRIM Protein 3
  • TRIM39-RPP21 Read-Through Transcript 3
  • TRIM39-RPP21 Protein 3
  • TRIM39R 3

External Ids for TRIM39-RPP21 Gene

Previous GeneCards Identifiers for TRIM39-RPP21 Gene

  • GC06U902092
  • GC06P030296
  • GC06P030423
  • GC06P030337
  • GC06P030445
  • GC06P030460
  • GC06P030529
  • GC06P030746

Summaries for TRIM39-RPP21 Gene

Entrez Gene Summary for TRIM39-RPP21 Gene

  • This locus represents naturally occurring read-through transcription between the neighboring TRIM39 (tripartite motif-containing 39) and RPP21 (ribonuclease P/MRP 21kDa subunit) genes on chromosome 6. The read-through transcript encodes a fusion protein that shares sequence identity with each individual gene product. [provided by RefSeq, Nov 2010]

GeneCards Summary for TRIM39-RPP21 Gene

TRIM39-RPP21 (TRIM39-RPP21 Readthrough) is a Protein Coding gene. Among its related pathways are Innate Immune System and Class I MHC mediated antigen processing and presentation. An important paralog of this gene is TRIM39.

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM39-RPP21 Gene

Genomics for TRIM39-RPP21 Gene

Regulatory Elements for TRIM39-RPP21 Gene

Enhancers for TRIM39-RPP21 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
GH06G030507 1.8 FANTOM5 Ensembl ENCODE dbSUPER 13.1 +180.7 180703 4.0 HDGF PKNOX1 YY1 TCF12 ZNF121 ZNF766 ELK1 CBX5 JUNB ZNF592 TRIM39-RPP21 HLA-A ABCF1 PPP1R10 TRIM39 HLA-E TRIM26 PPP1R11 PRR3 FLOT1
GH06G030678 1.9 FANTOM5 ENCODE dbSUPER 9.7 +356.4 356419 13.5 CREB3L1 MLX AGO1 DMAP1 YBX1 YY1 SLC30A9 ZNF416 ZNF143 ZNF263 IER3 HLA-E PPP1R18 PPP1R10 NRM MDC1 ABCF1 C6orf136 LINC00243 TRIM39-RPP21
GH06G030527 1.9 FANTOM5 Ensembl ENCODE dbSUPER 6.5 +200.1 200124 3.5 HDGF FOXA2 PKNOX1 MLX CREB3L1 ARNT ZFP64 ARID4B SIN3A DMAP1 IER3 PRR3 MICD GNL1 HCG18 ABCF1 HLA-C TRIM39 C6orf136 PPP1R10
GH06G030258 1 ENCODE 11.1 -69.3 -69250 1.7 ATF1 ARID4B SIN3A DMAP1 ZNF2 ZNF48 ZNF143 FOS ZNF263 ZNF202 HLA-U HLA-L HCG18 DHX16 HCG4P7 HLA-H HLA-F-AS1 PAIP1P1 HLA-J MICE
GH06G030792 1.7 FANTOM5 Ensembl ENCODE dbSUPER 3.8 +464.9 464949 2.1 ELF3 TBP TBL1XR1 ZBTB40 RARA ZNF207 SMARCA5 ZBTB11 JUNB ELF1 IER3 VARS2 FLOT1 LINC00243 DDR1 DDR1-AS1 GTF2H4 HCG20 DPCR1 HLA-E
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TRIM39-RPP21 on UCSC Golden Path with GeneCards custom track

Genomic Location for TRIM39-RPP21 Gene

Chromosome:
6
Start:
30,328,907 bp from pter
End:
30,346,858 bp from pter
Size:
17,952 bases
Orientation:
Plus strand

Genomic View for TRIM39-RPP21 Gene

Genes around TRIM39-RPP21 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM39-RPP21 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM39-RPP21 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for TRIM39-RPP21 Gene

  • Protein details for TRIM39-RPP21 Gene (UniProtKB/TrEMBL)

    Protein Symbol:
    A0A096LP39
    Recommended name:
    E3 ubiquitin-protein ligase TRIM39
    Protein Accession:
    A0A096LP39

    Protein attributes for TRIM39-RPP21 Gene

    Size:
    503 amino acids
    Molecular mass:
    57904 Da
    Quaternary structure:
    No Data Available

neXtProt entry for TRIM39-RPP21 Gene

Post-translational modifications for TRIM39-RPP21 Gene

No Post-translational modifications

Other Protein References for TRIM39-RPP21 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TRIM39-RPP21 Gene

Domains & Families for TRIM39-RPP21 Gene

Suggested Antigen Peptide Sequences for TRIM39-RPP21 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with TRIM39-RPP21: view

No data available for Gene Families and UniProtKB/Swiss-Prot for TRIM39-RPP21 Gene

Function for TRIM39-RPP21 Gene

Gene Ontology (GO) - Molecular Function for TRIM39-RPP21 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with TRIM39-RPP21: view

Phenotypes for TRIM39-RPP21 Gene

genes like me logo Genes that share phenotypes with TRIM39-RPP21: view

Animal Model Products

CRISPR Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for TRIM39-RPP21 Gene

Localization for TRIM39-RPP21 Gene

Gene Ontology (GO) - Cellular Components for TRIM39-RPP21 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol IDA --
genes like me logo Genes that share ontologies with TRIM39-RPP21: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from COMPARTMENTS for TRIM39-RPP21 Gene

Pathways & Interactions for TRIM39-RPP21 Gene

genes like me logo Genes that share pathways with TRIM39-RPP21: view

Interacting Proteins for TRIM39-RPP21 Gene

Gene Ontology (GO) - Biological Process for TRIM39-RPP21 Gene

None

No data available for SIGNOR curated interactions for TRIM39-RPP21 Gene

Drugs & Compounds for TRIM39-RPP21 Gene

No Compound Related Data Available

Transcripts for TRIM39-RPP21 Gene

mRNA/cDNA for TRIM39-RPP21 Gene

(1) REFSEQ mRNAs :
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM39-RPP21 Gene

No ASD Table

Relevant External Links for TRIM39-RPP21 Gene

GeneLoc Exon Structure for
TRIM39-RPP21
ECgene alternative splicing isoforms for
TRIM39-RPP21

Expression for TRIM39-RPP21 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRIM39-RPP21 Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from MaxQB and MOPED for TRIM39-RPP21 Gene



genes like me logo Genes that share expression patterns with TRIM39-RPP21: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRIM39-RPP21 Gene

Orthologs for TRIM39-RPP21 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TRIM39-RPP21 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia TRIM39-RPP21 35
  • 95 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 54 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Trim75 35
  • 22 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 40 (a)
OneToMany
Species where no ortholog for TRIM39-RPP21 was found in the sources mined by GeneCards:
  • 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)
  • chimpanzee (Pan troglodytes)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • 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)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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 TRIM39-RPP21 Gene

ENSEMBL:
Gene Tree for TRIM39-RPP21 (if available)
TreeFam:
Gene Tree for TRIM39-RPP21 (if available)

Paralogs for TRIM39-RPP21 Gene

genes like me logo Genes that share paralogs with TRIM39-RPP21: view

Variants for TRIM39-RPP21 Gene

Sequence variations from dbSNP and Humsavar for TRIM39-RPP21 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1000247515 -- 30,327,440(+) CTCTC(A/G)GGAGA intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs1000849666 -- 30,343,376(+) TTGCT(G/T)GTTTG intron-variant, upstream-variant-2KB, utr-variant-3-prime
rs1001032100 -- 30,335,575(+) CCCTC(A/G)GCCTC intron-variant
rs1001134805 -- 30,333,465(+) CCATT(C/G)TCCTG intron-variant
rs1001255204 -- 30,329,056(+) AAGAT(A/G)GATCA intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for TRIM39-RPP21 Gene

Variant ID Type Subtype PubMed ID
esv3411275 CNV duplication 20981092
nsv1074389 CNV deletion 25765185
nsv1122126 CNV deletion 24896259
nsv1144137 CNV deletion 24896259
nsv5241 CNV insertion 18451855
nsv601264 CNV loss 21841781

Variation tolerance for TRIM39-RPP21 Gene

Gene Damage Index Score: 12.64; 94.56% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRIM39-RPP21 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRIM39-RPP21

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRIM39-RPP21 Gene

Disorders for TRIM39-RPP21 Gene

Relevant External Links for TRIM39-RPP21

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRIM39-RPP21

No disorders were found for TRIM39-RPP21 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRIM39-RPP21 Gene

Publications for TRIM39-RPP21 Gene

  1. TRIM39R, but not TRIM39B, regulates type I interferon response. (PMID: 23707810) Kurata R. … Inoko H. (Biochem. Biophys. Res. Commun. 2013) 3 64
  2. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PMID: 20967262) Prakash T. … Taylor T.D. (PLoS ONE 2010) 3 64
  3. cGMP-dependent protein kinase I interacts with TRIM39R, a novel Rpp21 domain-containing TRIM protein. (PMID: 17601797) Roberts J.D.Jr. … Bloch K.D. (Am. J. Physiol. Lung Cell. Mol. Physiol. 2007) 3 64

Products for TRIM39-RPP21 Gene

Sources for TRIM39-RPP21 Gene

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