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TRAPPC6A trafficking protein particle complex 6A [ Homo sapiens (human) ]

Gene ID: 79090, updated on 22-Aug-2020

Summary

Official Symbol
TRAPPC6Aprovided by HGNC
Official Full Name
trafficking protein particle complex 6Aprovided by HGNC
Primary source
HGNC:HGNC:23069
See related
Ensembl:ENSG00000007255 MIM:610396
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TRS33
Summary
This gene encodes a component of the trafficking protein particle complex, which tethers transport vesicles to the cis-Golgi membrane. Loss of expression of the related gene in mouse affects coat and eye pigmentation, suggesting that the encoded protein may be involved in melanosome biogenesis. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Aug 2012]
Expression
Ubiquitous expression in kidney (RPKM 18.2), spleen (RPKM 12.2) and 25 other tissues See more
Orthologs

Genomic context

See TRAPPC6A in Genome Data Viewer
Location:
19q13.32
Exon count:
6
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (45162933..45179266, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (45666186..45681501, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene protein phosphatase 1 regulatory subunit 37 Neighboring gene eukaryotic translation initiation factor 5A pseudogene 3 Neighboring gene uncharacterized LOC105372420 Neighboring gene NTPase KAP family P-loop domain containing 1 Neighboring gene biogenesis of lysosomal organelles complex 1 subunit 3 Neighboring gene exocyst complex component 3 like 2 Neighboring gene exocyst complex component 3 like 4 pseudogene Neighboring gene microtubule affinity regulating kinase 4

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Genome-wide association studies in an isolated founder population from the Pacific Island of Kosrae.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC2650

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
COPII vesicle coating TAS
Traceable Author Statement
more info
 
ER to Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
melanosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of GTPase activity IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
TRAPP complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cis-Golgi network IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
trans-Golgi network IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
trafficking protein particle complex subunit 6A
Names
TRAPP complex subunit 6A

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_033044.1 RefSeqGene

    Range
    5007..20311
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001270891.2NP_001257820.1  trafficking protein particle complex subunit 6A isoform 2

    See identical proteins and their annotated locations for NP_001257820.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2, also known as TRAPPC6Adelta29-42) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AF161407, BC001907, CN256687
    Consensus CDS
    CCDS59397.1
    UniProtKB/Swiss-Prot
    O75865
    UniProtKB/TrEMBL
    B7TZ90
    Related
    ENSP00000468612.1, ENST00000585934.1
    Conserved Domains (1) summary
    cd14944
    Location:3157
    TRAPPC6A_Trs33; Trs33 subunit of the TRAPP complex
  2. NM_001270892.2NP_001257821.1  trafficking protein particle complex subunit 6A isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an exon in the coding region, which results in a frameshift, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    BC001907, CN256686, CN256687
    Consensus CDS
    CCDS59395.1
    UniProtKB/Swiss-Prot
    O75865
    Related
    ENSP00000468182.1, ENST00000592647.1
  3. NM_001270893.2NP_001257822.1  trafficking protein particle complex subunit 6A isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) has multiple differences in the coding region, one of which results in a frameshift, compared to variant 1. The encoded isoform (4) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    BC001907, BI462720
    Consensus CDS
    CCDS59396.1
    UniProtKB/Swiss-Prot
    O75865
    Related
    ENSP00000468363.1, ENST00000588062.5
  4. NM_024108.3NP_077013.1  trafficking protein particle complex subunit 6A isoform 1

    See identical proteins and their annotated locations for NP_077013.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    BC001907, CN256687
    Consensus CDS
    CCDS12655.1
    UniProtKB/Swiss-Prot
    O75865
    Related
    ENSP00000006275.3, ENST00000006275.8
    Conserved Domains (1) summary
    cd14944
    Location:3171
    TRAPPC6A_Trs33; Trs33 subunit of the TRAPP complex

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    45162933..45179266 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017027295.2XP_016882784.1  trafficking protein particle complex subunit 6A isoform X1

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