Human Gene TRIM9 (ENST00000298355.7) from GENCODE V44
  Description: 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. (from UniProt Q9C026)
RefSeq Summary (NM_015163): 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].
Gencode Transcript: ENST00000298355.7
Gencode Gene: ENSG00000100505.14
Transcript (Including UTRs)
   Position: hg38 chr14:50,975,262-51,096,061 Size: 120,800 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg38 chr14:50,977,291-51,094,939 Size: 117,649 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr14:50,975,262-51,096,061)mRNA (may differ from genome)Protein (710 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=E3 ubiquitin-protein ligase TRIM9; EC=6.3.2.-; AltName: Full=RING finger protein 91; AltName: Full=Tripartite motif-containing protein 9;
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.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Interacts with SNAP25 (By similarity).
SUBCELLULAR LOCATION: Cytoplasm. Cell projection, dendrite. Cytoplasmic vesicle, secretory vesicle, synaptic vesicle (By similarity). Cell junction, synapse (By similarity). Cytoplasm, cytoskeleton (By similarity). 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.
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.
DOMAIN: The coiled coil domain mediates the interaction with the N-terminal t-SNARE domain of SNAP25 (By similarity).
PTM: Auto-ubiquitinated. Poly-ubiquitinated in cultured cells, whereas it is monoubiquitinated in vitro.
SIMILARITY: Belongs to the TRIM/RBCC family.
SIMILARITY: Contains 2 B box-type zinc fingers.
SIMILARITY: Contains 1 B30.2/SPRY domain.
SIMILARITY: Contains 1 COS domain.
SIMILARITY: Contains 1 fibronectin type-III domain.
SIMILARITY: Contains 1 RING-type zinc finger.
SEQUENCE CAUTION: Sequence=AAG53490.1; Type=Frameshift; Positions=660; Sequence=AAG53492.1; Type=Frameshift; Positions=655; Sequence=BAA13398.2; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=BAA13398.2; Type=Frameshift; Positions=660;

-  Primer design for this transcript

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-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 64.00 RPKM in Brain - Cerebellum
Total median expression: 315.82 RPKM

View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -497.501122-0.443 Picture PostScript Text
3' UTR -555.402029-0.274 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001870 - B30.2/SPRY
IPR003649 - Bbox_C
IPR008985 - ConA-like_lec_gl_sf
IPR017903 - COS_domain
IPR003961 - Fibronectin_type3
IPR013783 - Ig-like_fold
IPR003877 - SPRY_rcpt
IPR000315 - Znf_B-box
IPR001841 - Znf_RING
IPR017907 - Znf_RING_CS

Pfam Domains:
PF00041 - Fibronectin type III domain
PF00622 - SPRY domain
PF00643 - B-box zinc finger

Protein Data Bank (PDB) 3-D Structure
MuPIT help

ModBase Predicted Comparative 3D Structure on Q9C026
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein SequenceProtein SequenceProtein SequenceProtein Sequence 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000149 SNARE binding
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0019904 protein domain specific binding
GO:0042803 protein homodimerization activity
GO:0046872 metal ion binding

Biological Process:
GO:0016079 synaptic vesicle exocytosis
GO:0016567 protein ubiquitination
GO:0035544 negative regulation of SNARE complex assembly
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0045955 negative regulation of calcium ion-dependent exocytosis

Cellular Component:
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0008021 synaptic vesicle
GO:0030054 cell junction
GO:0030425 dendrite
GO:0031410 cytoplasmic vesicle
GO:0042995 cell projection
GO:0045202 synapse

-  Descriptions from all associated GenBank mRNAs
  BC063872 - Homo sapiens tripartite motif-containing 9, mRNA (cDNA clone MGC:75399 IMAGE:6471552), complete cds.
AF220036 - Homo sapiens tripartite motif protein TRIM9 isoform alpha (TRIM9) mRNA, complete cds; alternatively spliced.
AF220037 - Homo sapiens tripartite motif protein TRIM9 isoform beta (TRIM9) mRNA, complete cds; alternatively spliced.
AF220038 - Homo sapiens tripartite motif protein TRIM9 isoform gamma (TRIM9) mRNA, complete cds; alternatively spliced.
D87458 - Homo sapiens mRNA for KIAA0282 gene, partial cds.
AK055388 - Homo sapiens cDNA FLJ30826 fis, clone FEBRA2001715, weakly similar to ZINC-BINDING PROTEIN A33.
AB383836 - Synthetic construct DNA, clone: pF1KSDA0282, Homo sapiens TRIM9 gene for tripartite motif-containing protein 9, complete cds, without stop codon, in Flexi system.
JD525078 - Sequence 506102 from Patent EP1572962.
JD146591 - Sequence 127615 from Patent EP1572962.
JD506995 - Sequence 488019 from Patent EP1572962.
JD251260 - Sequence 232284 from Patent EP1572962.
JD233956 - Sequence 214980 from Patent EP1572962.
JD495385 - Sequence 476409 from Patent EP1572962.
JD267956 - Sequence 248980 from Patent EP1572962.
JD351059 - Sequence 332083 from Patent EP1572962.
JD110920 - Sequence 91944 from Patent EP1572962.
JD089220 - Sequence 70244 from Patent EP1572962.
JD330070 - Sequence 311094 from Patent EP1572962.
JD168385 - Sequence 149409 from Patent EP1572962.
JD429669 - Sequence 410693 from Patent EP1572962.
JD562926 - Sequence 543950 from Patent EP1572962.
JD225908 - Sequence 206932 from Patent EP1572962.
JD485408 - Sequence 466432 from Patent EP1572962.
JD360389 - Sequence 341413 from Patent EP1572962.
JD491525 - Sequence 472549 from Patent EP1572962.
JD049090 - Sequence 30114 from Patent EP1572962.
JD132729 - Sequence 113753 from Patent EP1572962.
JD511279 - Sequence 492303 from Patent EP1572962.
JD021998 - Sequence 3022 from Patent EP1572962.
JD404151 - Sequence 385175 from Patent EP1572962.
JD215539 - Sequence 196563 from Patent EP1572962.
JD029044 - Sequence 10068 from Patent EP1572962.
JD452847 - Sequence 433871 from Patent EP1572962.
JD399873 - Sequence 380897 from Patent EP1572962.
JD193985 - Sequence 175009 from Patent EP1572962.
JD496687 - Sequence 477711 from Patent EP1572962.
AK054781 - Homo sapiens cDNA FLJ30219 fis, clone BRACE2001726.
BC013414 - Homo sapiens tripartite motif-containing 9, mRNA (cDNA clone MGC:4626 IMAGE:3510374), complete cds.
KJ895261 - Synthetic construct Homo sapiens clone ccsbBroadEn_04655 TRIM9 gene, encodes complete protein.
CU680598 - Synthetic construct Homo sapiens gateway clone IMAGE:100019842 5' read TRIM9 mRNA.
JD409465 - Sequence 390489 from Patent EP1572962.
JD156185 - Sequence 137209 from Patent EP1572962.
JD199985 - Sequence 181009 from Patent EP1572962.
JD129828 - Sequence 110852 from Patent EP1572962.
JD256447 - Sequence 237471 from Patent EP1572962.
JD069265 - Sequence 50289 from Patent EP1572962.
JD053952 - Sequence 34976 from Patent EP1572962.
JD053951 - Sequence 34975 from Patent EP1572962.
JD337277 - Sequence 318301 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9C026 (Reactome details) participates in the following event(s):

R-HSA-983157 Interaction of E3 with substrate and E2-Ub complex
R-HSA-983147 Release of E3 from polyubiquitinated substrate
R-HSA-983140 Transfer of Ub from E2 to substrate and release of E2
R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
R-HSA-983169 Class I MHC mediated antigen processing & presentation
R-HSA-1280218 Adaptive Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: D3DSB7, D3DSB8, ENST00000298355.1, ENST00000298355.2, ENST00000298355.3, ENST00000298355.4, ENST00000298355.5, ENST00000298355.6, KIAA0282, NR_170652, Q92557, Q96D24, Q96NI4, Q9C025, Q9C026, Q9C027, RNF91, TRIM9_HUMAN, uc001wyx.1, uc001wyx.2, uc001wyx.3, uc001wyx.4, uc001wyx.5
UCSC ID: ENST00000298355.7
RefSeq Accession: NM_015163
Protein: Q9C026 (aka TRIM9_HUMAN or TRM9_HUMAN)
CCDS: CCDS9703.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.