Human Gene TRAPPC6B (ENST00000330149.10) from GENCODE V44
  Description: Homo sapiens trafficking protein particle complex 6B (TRAPPC6B), transcript variant 1, mRNA. (from RefSeq NM_001079537)
RefSeq Summary (NM_001079537): TRAPPC6B is a component of TRAPP complexes, which are tethering complexes involved in vesicle transport (Kummel et al., 2005 [PubMed 16025134]).[supplied by OMIM, Mar 2008].
Gencode Transcript: ENST00000330149.10
Gencode Gene: ENSG00000182400.15
Transcript (Including UTRs)
   Position: hg38 chr14:39,147,814-39,170,333 Size: 22,520 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg38 chr14:39,150,350-39,170,095 Size: 19,746 Coding Exon Count: 6 

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 (chr14:39,147,814-39,170,333)mRNA (may differ from genome)Protein (158 aa)
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-  Comments and Description Text from UniProtKB
  ID: TPC6B_HUMAN
DESCRIPTION: RecName: Full=Trafficking protein particle complex subunit 6B;
FUNCTION: May play a role in vesicular transport from endoplasmic reticulum to Golgi (By similarity).
SUBUNIT: Part of the multisubunit TRAPP (transport protein particle) complex. Homodimer. Heterodimer with TRAPPC3.
SUBCELLULAR LOCATION: Golgi apparatus, cis-Golgi network (By similarity). Endoplasmic reticulum (By similarity).
SIMILARITY: Belongs to the TRAPP small subunits family. BET3 subfamily.
SEQUENCE CAUTION: Sequence=CAD62341.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

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-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 32.11 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 594.90 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 -75.20238-0.316 Picture PostScript Text
3' UTR -578.502536-0.228 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
IPR024096 - NO_sig/Golgi_transp_ligand-bd
IPR007194 - TRAPP_component

Pfam Domains:
PF04051 - Transport protein particle (TRAPP) component

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2BJN - X-ray MuPIT 2CFH - X-ray MuPIT 3KXC - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q86SZ2
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-  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
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Protein SequenceProtein SequenceProtein SequenceProtein SequenceProtein SequenceProtein Sequence
AlignmentAlignmentAlignmentAlignmentAlignmentAlignment

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

Biological Process:
GO:0006888 ER to Golgi vesicle-mediated transport
GO:0016192 vesicle-mediated transport
GO:0043087 regulation of GTPase activity
GO:0048193 Golgi vesicle transport
GO:0048208 COPII vesicle coating

Cellular Component:
GO:0000139 Golgi membrane
GO:0005783 endoplasmic reticulum
GO:0005794 Golgi apparatus
GO:0005801 cis-Golgi network
GO:0005802 trans-Golgi network
GO:0005829 cytosol
GO:0030008 TRAPP complex


-  Descriptions from all associated GenBank mRNAs
  AK025437 - Homo sapiens cDNA: FLJ21784 fis, clone HEP00285.
BC047328 - Homo sapiens trafficking protein particle complex 6B, mRNA (cDNA clone MGC:51953 IMAGE:5534151), complete cds.
AK056690 - Homo sapiens cDNA FLJ32128 fis, clone PEBLM2000147, highly similar to Homo sapiens trafficking protein particle complex 6B (TRAPPC6B), mRNA.
BC030604 - Homo sapiens trafficking protein particle complex 6B, mRNA (cDNA clone IMAGE:4827829), with apparent retained intron.
AL833179 - Homo sapiens mRNA; cDNA DKFZp667C045 (from clone DKFZp667C045).
BX161510 - human full-length cDNA clone CS0DK012YE11 of HeLa cells of Homo sapiens (human).
JD566713 - Sequence 547737 from Patent EP1572962.
JD091228 - Sequence 72252 from Patent EP1572962.
JD355357 - Sequence 336381 from Patent EP1572962.
JD208054 - Sequence 189078 from Patent EP1572962.
JD429342 - Sequence 410366 from Patent EP1572962.
JD120244 - Sequence 101268 from Patent EP1572962.
JD104255 - Sequence 85279 from Patent EP1572962.
JD344392 - Sequence 325416 from Patent EP1572962.
JD360209 - Sequence 341233 from Patent EP1572962.
JD372605 - Sequence 353629 from Patent EP1572962.
JD349442 - Sequence 330466 from Patent EP1572962.
JD354776 - Sequence 335800 from Patent EP1572962.
JD233502 - Sequence 214526 from Patent EP1572962.
JD345373 - Sequence 326397 from Patent EP1572962.
JD563298 - Sequence 544322 from Patent EP1572962.
JD350187 - Sequence 331211 from Patent EP1572962.
JD550898 - Sequence 531922 from Patent EP1572962.
JD183239 - Sequence 164263 from Patent EP1572962.
JD301880 - Sequence 282904 from Patent EP1572962.
JD296522 - Sequence 277546 from Patent EP1572962.
JD531034 - Sequence 512058 from Patent EP1572962.
JD262664 - Sequence 243688 from Patent EP1572962.
JD418424 - Sequence 399448 from Patent EP1572962.
JD491291 - Sequence 472315 from Patent EP1572962.
JD444232 - Sequence 425256 from Patent EP1572962.
AK310730 - Homo sapiens cDNA, FLJ17772.
LF205802 - JP 2014500723-A/13305: Polycomb-Associated Non-Coding RNAs.
MA441379 - JP 2018138019-A/13305: Polycomb-Associated Non-Coding RNAs.
BX248013 - human full-length cDNA clone CS0DM009YC24 of Fetal liver of Homo sapiens (human).
LF348373 - JP 2014500723-A/155876: Polycomb-Associated Non-Coding RNAs.
MA583950 - JP 2018138019-A/155876: Polycomb-Associated Non-Coding RNAs.
AK315900 - Homo sapiens cDNA, FLJ79549 complete cds, highly similar to Trafficking protein particle complex subunit6B.
AK294339 - Homo sapiens cDNA FLJ50482 complete cds, moderately similar to Trafficking protein particle complex subunit6B.
JD038649 - Sequence 19673 from Patent EP1572962.
JD553970 - Sequence 534994 from Patent EP1572962.
LF348374 - JP 2014500723-A/155877: Polycomb-Associated Non-Coding RNAs.
MA583951 - JP 2018138019-A/155877: Polycomb-Associated Non-Coding RNAs.
JD082480 - Sequence 63504 from Patent EP1572962.
JD449216 - Sequence 430240 from Patent EP1572962.
HQ448495 - Synthetic construct Homo sapiens clone IMAGE:100071927; CCSB011484_01 trafficking protein particle complex 6B (TRAPPC6B) gene, encodes complete protein.
KJ895369 - Synthetic construct Homo sapiens clone ccsbBroadEn_04763 TRAPPC6B gene, encodes complete protein.
LF348376 - JP 2014500723-A/155879: Polycomb-Associated Non-Coding RNAs.
MA583953 - JP 2018138019-A/155879: Polycomb-Associated Non-Coding RNAs.
JD360586 - Sequence 341610 from Patent EP1572962.
JD439172 - Sequence 420196 from Patent EP1572962.
JD420539 - Sequence 401563 from Patent EP1572962.
JD324693 - Sequence 305717 from Patent EP1572962.
JD465290 - Sequence 446314 from Patent EP1572962.
JD283038 - Sequence 264062 from Patent EP1572962.

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

Protein Q86SZ2 (Reactome details) participates in the following event(s):

R-HSA-5694439 COPII coat binds TRAPPCII and RAB1:GDP
R-HSA-5694441 CSNK1D phosphorylates SEC23
R-HSA-5694418 RAB1:GTP binds USO1 and GORASP1:GOLGA2
R-HSA-5694409 Nucleotide exchange on RAB1
R-HSA-8877475 TRAPPC complexes exchange GTP for GDP on RAB1
R-HSA-204005 COPII-mediated vesicle transport
R-HSA-199977 ER to Golgi Anterograde Transport
R-HSA-8876198 RAB GEFs exchange GTP for GDP on RABs
R-HSA-199991 Membrane Trafficking
R-HSA-948021 Transport to the Golgi and subsequent modification
R-HSA-9007101 Rab regulation of trafficking
R-HSA-5653656 Vesicle-mediated transport
R-HSA-446203 Asparagine N-linked glycosylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: B3KPS2, ENST00000330149.1, ENST00000330149.2, ENST00000330149.3, ENST00000330149.4, ENST00000330149.5, ENST00000330149.6, ENST00000330149.7, ENST00000330149.8, ENST00000330149.9, NM_001079537, Q5JPD6, Q86SZ2, Q86U35, Q86X35, TPC6B_HUMAN, uc001wut.1, uc001wut.2, uc001wut.3
UCSC ID: ENST00000330149.10
RefSeq Accession: NM_001079537
Protein: Q86SZ2 (aka TPC6B_HUMAN or TPC6_HUMAN)
CCDS: CCDS41947.1

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