Human Gene TRAPPC13 (ENST00000231526.8_4) from GENCODE V47lift37
  Description: trafficking protein particle complex subunit 13, transcript variant 7 (from RefSeq NM_001365343.1)
Gencode Transcript: ENST00000231526.8_4
Gencode Gene: ENSG00000113597.19_15
Transcript (Including UTRs)
   Position: hg19 chr5:64,920,867-64,961,896 Size: 41,030 Total Exon Count: 12 Strand: +
Coding Region
   Position: hg19 chr5:64,920,888-64,960,438 Size: 39,551 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:64,920,867-64,961,896)mRNA (may differ from genome)Protein (411 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CE044_HUMAN
DESCRIPTION: RecName: Full=UPF0533 protein C5orf44;
SIMILARITY: Belongs to the UPF0533 family.
SEQUENCE CAUTION: Sequence=AAH47475.1; Type=Miscellaneous discrepancy; Note=Wrong choice of CDS; Sequence=BAB14633.1; Type=Erroneous termination; Positions=63; Note=Translated as Glu;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.59 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 332.80 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 -1.4021-0.067 Picture PostScript Text
3' UTR -328.701458-0.225 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
IPR010378 - DUF974

Pfam Domains:
PF06159 - Protein of unknown function (DUF974)

SCOP Domains:
49309 - Transglutaminase, two C-terminal domains

ModBase Predicted Comparative 3D Structure on A5PLN9
FrontTopSide
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0017112 Rab guanyl-nucleotide exchange factor activity

Cellular Component:
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  BX641157 - Homo sapiens mRNA; cDNA DKFZp686I20227 (from clone DKFZp686I20227).
BC012006 - Homo sapiens cDNA clone IMAGE:4508655, containing frame-shift errors.
BC142994 - Homo sapiens chromosome 5 open reading frame 44, mRNA (cDNA clone MGC:167116 IMAGE:8860449), complete cds.
AK023673 - Homo sapiens cDNA FLJ13611 fis, clone PLACE1010802.
KJ903263 - Synthetic construct Homo sapiens clone ccsbBroadEn_12657 C5orf44 gene, encodes complete protein.
BC117128 - Homo sapiens chromosome 5 open reading frame 44, mRNA (cDNA clone IMAGE:40125679), partial cds.
BC143691 - Homo sapiens chromosome 5 open reading frame 44, mRNA (cDNA clone IMAGE:9052205), partial cds.
BC143693 - Homo sapiens chromosome 5 open reading frame 44, mRNA (cDNA clone IMAGE:9052207), partial cds.
JD130515 - Sequence 111539 from Patent EP1572962.
JD363027 - Sequence 344051 from Patent EP1572962.
KJ904883 - Synthetic construct Homo sapiens clone ccsbBroadEn_14277 C5orf44-like gene, encodes complete protein.
DQ088673 - Homo sapiens hypothetical protein FLJ13611 mRNA, complete cds, alternatively spliced.
AL713699 - Homo sapiens mRNA; cDNA DKFZp547D109 (from clone DKFZp547D109).
BC047475 - Homo sapiens chromosome 5 open reading frame 44, mRNA (cDNA clone IMAGE:5315003), complete cds.
JD419316 - Sequence 400340 from Patent EP1572962.
JD302438 - Sequence 283462 from Patent EP1572962.
JD096679 - Sequence 77703 from Patent EP1572962.
JD309792 - Sequence 290816 from Patent EP1572962.
JD440747 - Sequence 421771 from Patent EP1572962.
JD430389 - Sequence 411413 from Patent EP1572962.
JD430390 - Sequence 411414 from Patent EP1572962.
JD529562 - Sequence 510586 from Patent EP1572962.
JD169953 - Sequence 150977 from Patent EP1572962.
JD169955 - Sequence 150979 from Patent EP1572962.
JD306661 - Sequence 287685 from Patent EP1572962.
JD056403 - Sequence 37427 from Patent EP1572962.
JD489841 - Sequence 470865 from Patent EP1572962.
JD138231 - Sequence 119255 from Patent EP1572962.
JD175748 - Sequence 156772 from Patent EP1572962.
JD332054 - Sequence 313078 from Patent EP1572962.
JD447738 - Sequence 428762 from Patent EP1572962.
JD250007 - Sequence 231031 from Patent EP1572962.
JD378361 - Sequence 359385 from Patent EP1572962.
JD354525 - Sequence 335549 from Patent EP1572962.
JD417866 - Sequence 398890 from Patent EP1572962.
JD258732 - Sequence 239756 from Patent EP1572962.
JD436491 - Sequence 417515 from Patent EP1572962.
JD134422 - Sequence 115446 from Patent EP1572962.
JD236381 - Sequence 217405 from Patent EP1572962.
JD037622 - Sequence 18646 from Patent EP1572962.
JD038393 - Sequence 19417 from Patent EP1572962.
JD229873 - Sequence 210897 from Patent EP1572962.

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

Protein A5PLN9 (Reactome details) participates in the following event(s):

R-HSA-8877475 TRAPPC complexes exchange GTP for GDP on RAB1
R-HSA-8876198 RAB GEFs exchange GTP for GDP on RABs
R-HSA-9007101 Rab regulation of trafficking
R-HSA-199991 Membrane Trafficking
R-HSA-5653656 Vesicle-mediated transport

-  Other Names for This Gene
  Alternate Gene Symbols: A5PLN9, C5orf44, ENST00000231526.1, ENST00000231526.2, ENST00000231526.3, ENST00000231526.4, ENST00000231526.5, ENST00000231526.6, ENST00000231526.7, NM_001365343, Q17RZ9, Q49A23, Q4JHG0, Q6MZG4, Q8TCM2, Q9H8I3, TPC13_HUMAN, uc317dut.1, uc317dut.2
UCSC ID: ENST00000231526.8_4
RefSeq Accession: NM_001093756.2
Protein: A5PLN9 (aka CE044_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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