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TRAPPC4 trafficking protein particle complex 4 [ Homo sapiens (human) ]

Gene ID: 51399, updated on 9-Jun-2020

Summary

Official Symbol
TRAPPC4provided by HGNC
Official Full Name
trafficking protein particle complex 4provided by HGNC
Primary source
HGNC:HGNC:19943
See related
Ensembl:ENSG00000196655 MIM:610971
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SBDN; TRS23; PTD009; CGI-104; HSPC172; NEDESBA; SYNBINDIN
Expression
Ubiquitous expression in testis (RPKM 25.2), adrenal (RPKM 22.1) and 25 other tissues See more
Orthologs

Genomic context

See TRAPPC4 in Genome Data Viewer
Location:
11q23.3
Exon count:
5
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (119018766..119024134)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (118889241..118894384)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene centrosomal AT-AC splicing factor Neighboring gene ribosomal protein L23a pseudogene 64 Neighboring gene ribosomal protein S25 Neighboring gene solute carrier family 37 member 4 Neighboring gene hypoxia up-regulated 1 Neighboring gene VPS11 core subunit of CORVET and HOPS complexes

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?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
Rab guanyl-nucleotide exchange factor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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 
ER to Golgi vesicle-mediated transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
autophagy IMP
Inferred from Mutant Phenotype
more info
PubMed 
dendrite development ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
Component Evidence Code Pubs
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
Golgi stack ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
TRAPP complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
TRAPP complex IDA
Inferred from Direct Assay
more info
PubMed 
TRAPP complex IMP
Inferred from Mutant Phenotype
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
dendrite ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
synapse ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
synaptic vesicle ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 

General protein information

Preferred Names
trafficking protein particle complex subunit 4
Names
TRS23 homolog
hematopoietic stem/progenitor cell protein 172

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.

mRNA and Protein(s)

  1. NM_001318486.2NP_001305415.1  trafficking protein particle complex subunit 4 isoform 2 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate coding exon compared to variant 1. The resulting isoform (2) has a shorter and distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AF105025, AP003392, BP246594
    UniProtKB/Swiss-Prot
    Q9Y296
    Conserved Domains (1) summary
    cl21566
    Location:45103
    Sedlin_N; Sedlin, N-terminal conserved region
  2. NM_001318488.2NP_001305417.1  trafficking protein particle complex subunit 4 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AF105025, AK293977, AP003392
    Consensus CDS
    CCDS81634.1
    UniProtKB/Swiss-Prot
    Q9Y296
    UniProtKB/TrEMBL
    B4DF86, J3KP27
    Related
    ENSP00000351896.4, ENST00000359005.8
    Conserved Domains (1) summary
    cl21566
    Location:97171
    Sedlin_N; Sedlin, N-terminal conserved region
  3. NM_001318489.2NP_001305418.1  trafficking protein particle complex subunit 4 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains two alternate neighboring splice junctions in the coding region compared to variant 1. The resulting isoform (4) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AF105025, AK297422, AP003392
    Consensus CDS
    CCDS81633.1
    UniProtKB/Swiss-Prot
    Q9Y296
    Related
    ENSP00000405033.2, ENST00000434101.6
    Conserved Domains (1) summary
    cl21566
    Location:3155
    Sedlin_N; Sedlin, N-terminal conserved region
  4. NM_001318490.2NP_001305419.1  trafficking protein particle complex subunit 4 isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains an alternate in-frame splice junction compared to variant 1. The resulting isoform (5) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AF105025, AP003392, BP332308
    Consensus CDS
    CCDS81632.1
    UniProtKB/Swiss-Prot
    Q9Y296
    UniProtKB/TrEMBL
    E9PQE8
    Related
    ENSP00000436827.1, ENST00000528230.5
    Conserved Domains (1) summary
    pfam04099
    Location:3166
    Sybindin; Sybindin-like family
  5. NM_001318492.2NP_001305421.1  trafficking protein particle complex subunit 4 isoform 6

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) contains an alternate splice junction compared to variant 1. The resulting isoform (6) has a shorter and distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AF105025, AP003392, BF971819
    UniProtKB/Swiss-Prot
    Q9Y296
    Conserved Domains (1) summary
    cl21566
    Location:11104
    Sedlin_N; Sedlin, N-terminal conserved region
  6. NM_001318494.2NP_001305423.1  trafficking protein particle complex subunit 4 isoform 7

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) lacks two consecutive coding exons compared to variant 1. The resulting isoform (7) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AF105025, AP003392, BU624012
    Consensus CDS
    CCDS81635.1
    UniProtKB/Swiss-Prot
    Q9Y296
    UniProtKB/TrEMBL
    E9PKS9
    Related
    ENSP00000435339.1, ENST00000525303.5
    Conserved Domains (1) summary
    cl21566
    Location:3116
    Sedlin_N; Sedlin, N-terminal conserved region
  7. NM_016146.6NP_057230.1  trafficking protein particle complex subunit 4 isoform 1

    See identical proteins and their annotated locations for NP_057230.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AF105025, AP003392
    Consensus CDS
    CCDS8407.1
    UniProtKB/Swiss-Prot
    Q9Y296
    Related
    ENSP00000436005.1, ENST00000533632.6
    Conserved Domains (1) summary
    pfam04099
    Location:97209
    Sybindin; Sybindin-like family

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    119018766..119024134
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 PATCHES

Genomic

  1. NW_009646203.1 Reference GRCh38.p13 PATCHES

    Range
    40366..45734
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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