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Aliases for TRIM9 Gene

Aliases for TRIM9 Gene

  • Tripartite Motif Containing 9 2 3 5
  • Tripartite Motif-Containing Protein 9 3 4
  • RING Finger Protein 91 3 4
  • RNF91 3 4
  • E3 Ubiquitin-Protein Ligase TRIM9 3
  • Homolog Of Rat RING Finger Spring 3
  • Tripartite Motif-Containing 9 2
  • EC 6.3.2.- 4
  • KIAA0282 4
  • SPRING 3

External Ids for TRIM9 Gene

Previous GeneCards Identifiers for TRIM9 Gene

  • GC14M048763
  • GC14M045237
  • GC14M049432
  • GC14M050511
  • GC14M051441
  • GC14M031567

Summaries for TRIM9 Gene

Entrez Gene Summary for TRIM9 Gene

  • The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. The protein localizes to cytoplasmic bodies. Its function has not been identified. Alternate splicing of this gene generates two transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]

GeneCards Summary for TRIM9 Gene

TRIM9 (Tripartite Motif Containing 9) is a Protein Coding gene. Among its related pathways are Immune System and Class I MHC mediated antigen processing and presentation. GO annotations related to this gene include protein homodimerization activity and ubiquitin-protein transferase activity. An important paralog of this gene is TRIM67.

UniProtKB/Swiss-Prot for TRIM9 Gene

  • E3 ubiquitin-protein ligase which ubiquitinates itself in cooperation with an E2 enzyme UBE2D2/UBC4 and serves as a targeting signal for proteasomal degradation. May play a role in regulation of neuronal functions and may also participate in the formation or breakdown of abnormal inclusions in neurodegenerative disorders. May act as a regulator of synaptic vesicle exocytosis by controlling the availability of SNAP25 for the SNARE complex formation.

Gene Wiki entry for TRIM9 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM9 Gene

Genomics for TRIM9 Gene

Regulatory Elements for TRIM9 Gene

Enhancers for TRIM9 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
GH14F051004 1.2 Ensembl ENCODE 7.3 +90.0 90004 3.3 ELF3 PKNOX1 KLF17 SIN3A FEZF1 RAD21 ZEB1 RARA ZNF366 ZNF391 TRIM9 PYGL GC14P050964 LOC105370493
GH14F051138 0.8 Ensembl ENCODE 9.3 -43.0 -43044 1.8 ZFHX2 RFX1 HLF TRIM28 TMX1 TRIM9
GH14F051095 1 ENCODE 5.8 +0.6 563 1.6 PKNOX1 ARID4B SIN3A ZNF48 ZNF121 GLIS2 FOS ZNF263 SP3 NFYC LOC105370493 TRIM9
GH14F051167 0.6 Ensembl ENCODE 8.5 -72.1 -72063 0.8 NR2F2 TRIM9 TMX1
GH14F051018 0.7 Ensembl ENCODE 6.9 +76.2 76172 3.7 SMARCA4 POLR2A REST PYGL TRIM9 GC14P050964 LOC105370493
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TRIM9 on UCSC Golden Path with GeneCards custom track

Promoters for TRIM9 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000417528 661 1601 PKNOX1 ARID4B SIN3A ZNF48 ZNF121 GLIS2 FOS ZNF263 SP3 NFYC

Genomic Location for TRIM9 Gene

Chromosome:
14
Start:
50,975,261 bp from pter
End:
51,096,061 bp from pter
Size:
120,801 bases
Orientation:
Minus strand

Genomic View for TRIM9 Gene

Genes around TRIM9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM9 Gene

Proteins for TRIM9 Gene

  • Protein details for TRIM9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9C026-TRIM9_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRIM9
    Protein Accession:
    Q9C026
    Secondary Accessions:
    • D3DSB7
    • D3DSB8
    • Q92557
    • Q96D24
    • Q96NI4
    • Q9C025
    • Q9C027

    Protein attributes for TRIM9 Gene

    Size:
    710 amino acids
    Molecular mass:
    79177 Da
    Quaternary structure:
    • Interacts with SNAP25.
    SequenceCaution:
    • Sequence=AAG53490.1; Type=Frameshift; Positions=660; Evidence={ECO:0000305}; Sequence=AAG53492.1; Type=Frameshift; Positions=655; Evidence={ECO:0000305}; Sequence=BAA13398.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAA13398.2; Type=Frameshift; Positions=660; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for TRIM9 Gene

    Alternative splice isoforms for TRIM9 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRIM9 Gene

Post-translational modifications for TRIM9 Gene

  • Auto-ubiquitinated. Poly-ubiquitinated in cultured cells, whereas it is monoubiquitinated in vitro.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • Abcam antibodies for TRIM9

No data available for DME Specific Peptides for TRIM9 Gene

Domains & Families for TRIM9 Gene

Suggested Antigen Peptide Sequences for TRIM9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9C026

UniProtKB/Swiss-Prot:

TRIM9_HUMAN :
  • The coiled coil domain mediates the interaction with the N-terminal t-SNARE domain of SNAP25.
  • Belongs to the TRIM/RBCC family.
  • Contains 2 B box-type zinc fingers.
Domain:
  • The coiled coil domain mediates the interaction with the N-terminal t-SNARE domain of SNAP25.
  • Contains 1 B30.2/SPRY domain.
  • Contains 1 COS domain.
  • Contains 1 fibronectin type-III domain.
Family:
  • Belongs to the TRIM/RBCC family.
Similarity:
  • Contains 2 B box-type zinc fingers.
  • Contains 1 RING-type zinc finger.
genes like me logo Genes that share domains with TRIM9: view

Function for TRIM9 Gene

Molecular function for TRIM9 Gene

UniProtKB/Swiss-Prot Function:
E3 ubiquitin-protein ligase which ubiquitinates itself in cooperation with an E2 enzyme UBE2D2/UBC4 and serves as a targeting signal for proteasomal degradation. May play a role in regulation of neuronal functions and may also participate in the formation or breakdown of abnormal inclusions in neurodegenerative disorders. May act as a regulator of synaptic vesicle exocytosis by controlling the availability of SNAP25 for the SNARE complex formation.

Enzyme Numbers (IUBMB) for TRIM9 Gene

Gene Ontology (GO) - Molecular Function for TRIM9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000149 SNARE binding IEA --
GO:0004842 ubiquitin-protein transferase activity IDA 20085810
GO:0005515 protein binding IPI 16189514
GO:0008270 zinc ion binding IEA --
GO:0016874 ligase activity IEA --
genes like me logo Genes that share ontologies with TRIM9: view
genes like me logo Genes that share phenotypes with TRIM9: view

Animal Models for TRIM9 Gene

MGI Knock Outs for TRIM9:

Animal Model Products

miRNA for TRIM9 Gene

miRTarBase miRNAs that target TRIM9

Inhibitory RNA Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRIM9 Gene

Localization for TRIM9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRIM9 Gene

Cytoplasm. Cell projection, dendrite. Cytoplasmic vesicle, secretory vesicle, synaptic vesicle. Cell junction, synapse. Cytoplasm, cytoskeleton. Note=Enriched at synaptic terminals where it exists in a soluble form and a synaptic vesicle-associated form. Associated with the cytoskeleton (By similarity). Found in proximal dendrites of pyramidal neurons in the cerebral cortex and hippocampus, and Purkinje cells in the cerebellum. {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 TRIM9 gene
Compartment Confidence
cytosol 4
cytoskeleton 3
nucleus 2

Gene Ontology (GO) - Cellular Components for TRIM9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005737 cytoplasm IEA,IDA 11331580
GO:0005856 cytoskeleton IEA --
GO:0008021 synaptic vesicle IEA --
GO:0030054 cell junction IEA --
genes like me logo Genes that share ontologies with TRIM9: view

Pathways & Interactions for TRIM9 Gene

genes like me logo Genes that share pathways with TRIM9: view

UniProtKB/Swiss-Prot Q9C026-TRIM9_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for TRIM9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016079 synaptic vesicle exocytosis IEA --
GO:0016567 protein ubiquitination IEA --
GO:0035544 negative regulation of SNARE complex assembly IEA --
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process IDA 20085810
GO:0045955 negative regulation of calcium ion-dependent exocytosis IEA --
genes like me logo Genes that share ontologies with TRIM9: view

No data available for SIGNOR curated interactions for TRIM9 Gene

Transcripts for TRIM9 Gene

Unigene Clusters for TRIM9 Gene

Tripartite motif containing 9:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM9 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9a · 9b ^ 10 ^ 11a · 11b · 11c ^ 12a · 12b ^ 13a · 13b · 13c ^ 14
SP1: - - - - - - -
SP2: - - - - - - - - - -
SP3:
SP4: -
SP5:
SP6:

Relevant External Links for TRIM9 Gene

GeneLoc Exon Structure for
TRIM9
ECgene alternative splicing isoforms for
TRIM9

Expression for TRIM9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TRIM9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TRIM9 Gene

This gene is overexpressed in Brain - Cerebellum (x8.6), Brain - Cerebellar Hemisphere (x7.7), Brain - Cortex (x4.6), and Brain - Frontal Cortex (BA9) (x4.2).

Protein differential expression in normal tissues from HIPED for TRIM9 Gene

This gene is overexpressed in Platelet (51.0) and Fetal Brain (11.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRIM9 Gene



Protein tissue co-expression partners for TRIM9 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRIM9 Gene:

TRIM9

SOURCE GeneReport for Unigene cluster for TRIM9 Gene:

Hs.654750

mRNA Expression by UniProt/SwissProt for TRIM9 Gene:

Q9C026-TRIM9_HUMAN
Tissue specificity: Brain. Highly expressed in the cerebral cortex (at protein level). Severely decreased in the affected brain areas in Parkinson disease and dementia with Lewy bodies.
genes like me logo Genes that share expression patterns with TRIM9: view

Orthologs for TRIM9 Gene

This gene was present in the common ancestor of animals.

Orthologs for TRIM9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRIM9 34 35
  • 99.39 (n)
dog
(Canis familiaris)
Mammalia TRIM9 34 35
  • 93.62 (n)
cow
(Bos Taurus)
Mammalia TRIM9 34 35
  • 92.44 (n)
mouse
(Mus musculus)
Mammalia Trim9 16 35 34
  • 90.73 (n)
rat
(Rattus norvegicus)
Mammalia Trim9 34
  • 90.66 (n)
oppossum
(Monodelphis domestica)
Mammalia TRIM9 35
  • 85 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRIM9 35
  • 77 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRIM9 35
  • 79 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TRIM9 35
  • 68 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia trim9 34
  • 79.74 (n)
zebrafish
(Danio rerio)
Actinopterygii trim9 34 35
  • 75.39 (n)
fruit fly
(Drosophila melanogaster)
Insecta Trim9 34 35
  • 55.52 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008750 34
  • 54.6 (n)
worm
(Caenorhabditis elegans)
Secernentea trim-9 34 35
  • 50.76 (n)
C39F7.2 36
  • 37 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 44 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.14178 34
Species where no ortholog for TRIM9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for TRIM9 Gene

ENSEMBL:
Gene Tree for TRIM9 (if available)
TreeFam:
Gene Tree for TRIM9 (if available)

Paralogs for TRIM9 Gene

(1) SIMAP similar genes for TRIM9 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with TRIM9: view

Variants for TRIM9 Gene

Sequence variations from dbSNP and Humsavar for TRIM9 Gene

SNP ID Clin Chr 14 pos Sequence Context AA Info Type
rs10129635 -- 51,031,819(+) CCAAG(A/G)TTACC intron-variant
rs10129790 -- 51,031,961(+) GAAAG(A/G)AGGAG intron-variant
rs10130678 -- 50,984,812(+) AATGT(A/G)CATTA intron-variant
rs10130725 -- 50,992,076(+) ATAGA(C/G)TGTTT intron-variant
rs10133868 -- 51,013,613(+) GGTGA(A/G)AGGAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRIM9 Gene

Variant ID Type Subtype PubMed ID
nsv476560 CNV novel sequence insertion 20440878
nsv84409 CNV deletion 16902084

Variation tolerance for TRIM9 Gene

Residual Variation Intolerance Score: 4.37% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.70; 46.30% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRIM9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRIM9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRIM9 Gene

Disorders for TRIM9 Gene

Relevant External Links for TRIM9

Genetic Association Database (GAD)
TRIM9
Human Genome Epidemiology (HuGE) Navigator
TRIM9
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRIM9

No disorders were found for TRIM9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRIM9 Gene

Publications for TRIM9 Gene

  1. The tripartite motif family identifies cell compartments. (PMID: 11331580) Reymond A. … Ballabio A. (EMBO J. 2001) 2 3 4 64
  2. TRIM9, a novel brain-specific E3 ubiquitin ligase, is repressed in the brain of Parkinson's disease and dementia with Lewy bodies. (PMID: 20085810) Tanji K. … Wakabayashi K. (Neurobiol. Dis. 2010) 3 4 64
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for TRIM9 Gene

Sources for TRIM9 Gene

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