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TRAPPC13 trafficking protein particle complex 13 [ Homo sapiens (human) ]

Gene ID: 80006, updated on 10-Dec-2019

Summary

Official Symbol
TRAPPC13provided by HGNC
Official Full Name
trafficking protein particle complex 13provided by HGNC
Primary source
HGNC:HGNC:25828
See related
Ensembl:ENSG00000113597
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
SHLD3; C5orf44
Expression
Ubiquitous expression in prostate (RPKM 7.6), thyroid (RPKM 6.9) and 25 other tissues See more
Orthologs

Genomic context

See TRAPPC13 in Genome Data Viewer
Location:
5q12.3
Exon count:
13
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (65624731..65666233)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (64920558..64961954)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene peptidylprolyl isomerase domain and WD repeat containing 1 Neighboring gene RNA, U6 small nuclear 540, pseudogene Neighboring gene tripartite motif containing 23 Neighboring gene shieldin complex subunit 3 Neighboring gene small glutamine rich tetratricopeptide repeat containing beta Neighboring gene PRAME family member 17 pseudogene Neighboring gene neurolysin Neighboring gene LSM3 homolog, U6 small nuclear RNA associated (S. cerevisiae) pseudogene Neighboring gene erbb2 interacting protein

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

Pathways from BioSystems

  • Membrane Trafficking, organism-specific biosystem (from REACTOME)
    Membrane Trafficking, organism-specific biosystemThe secretory membrane system allows a cell to regulate delivery of newly synthesized proteins, carbohydrates, and lipids to the cell surface, a necessity for growth and homeostasis. The system is ma...
  • RAB GEFs exchange GTP for GDP on RABs, organism-specific biosystem (from REACTOME)
    RAB GEFs exchange GTP for GDP on RABs, organism-specific biosystemHuman cells have more than 60 RAB proteins that are key regulators of intracellular membrane trafficking. These small GTPases contribute to trafficking specificity by localizing to the membranes of d...
  • Vesicle-mediated transport, organism-specific biosystem (from REACTOME)
    Vesicle-mediated transport, organism-specific biosystemThe transit of proteins and other cargo through the cell requires a cellular transport process in which transported substances are moved in membrane-bounded vesicles. Transported substances are enclo...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ13611, FLJ26957, MGC48585

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
cytosol TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
trafficking protein particle complex subunit 13
Names
REV7-interacting novel NHEJ regulator 1
Trs65-related
UPF0533 protein C5orf44

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_001093755.1NP_001087224.1  trafficking protein particle complex subunit 13 isoform 1

    See identical proteins and their annotated locations for NP_001087224.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AK023673, AL713699, BC012006, BM664695, DA903408, DB145758, N67829
    Consensus CDS
    CCDS47221.1
    UniProtKB/Swiss-Prot
    A5PLN9
    Related
    ENSP00000409231.2, ENST00000438419.6
    Conserved Domains (1) summary
    pfam06159
    Location:65298
    DUF974; Protein of unknown function (DUF974)
  2. NM_001093756.1NP_001087225.1  trafficking protein particle complex subunit 13 isoform 3

    See identical proteins and their annotated locations for NP_001087225.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon in the central coding region and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1, resulting in a shorter protein (isoform 3).
    Source sequence(s)
    AK023673, AL713699, BC117128, BM664695, DA903408, DB145758, N67829
    Consensus CDS
    CCDS47223.1
    UniProtKB/Swiss-Prot
    A5PLN9
    Related
    ENSP00000231526.4, ENST00000231526.8
    Conserved Domains (1) summary
    pfam06159
    Location:65292
    DUF974; Protein of unknown function (DUF974)
  3. NM_001243737.1NP_001230666.1  trafficking protein particle complex subunit 13 isoform 4

    See identical proteins and their annotated locations for NP_001230666.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an exon and uses an alternate splice site in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
    Source sequence(s)
    AC008560, BC142994, DA903408, DB145758
    Consensus CDS
    CCDS58950.1
    UniProtKB/Swiss-Prot
    A5PLN9
    Related
    ENSP00000423405.1, ENST00000505553.5
    Conserved Domains (1) summary
    pfam06159
    Location:65292
    DUF974; Protein of unknown function (DUF974)
  4. NM_001365342.1NP_001352271.1  trafficking protein particle complex subunit 13 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC008560, DA236226
    Conserved Domains (1) summary
    pfam06159
    Location:1135
    DUF974; Protein of unknown function (DUF974)
  5. NM_001365343.1NP_001352272.1  trafficking protein particle complex subunit 13 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC008560, DA236226
    Conserved Domains (1) summary
    pfam06159
    Location:1135
    DUF974; Protein of unknown function (DUF974)
  6. NM_024941.4NP_079217.2  trafficking protein particle complex subunit 13 isoform 2

    See identical proteins and their annotated locations for NP_079217.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1, resulting in a shorter protein (isoform 2).
    Source sequence(s)
    AC008560, AK023673, AL713699, BC117128, BM664695, DB145758, N67829
    Consensus CDS
    CCDS47222.1
    UniProtKB/Swiss-Prot
    A5PLN9
    Related
    ENSP00000382367.3, ENST00000399438.8
    Conserved Domains (1) summary
    pfam06159
    Location:65298
    DUF974; Protein of unknown function (DUF974)

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_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    65624731..65666233
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NR_003545.1: Suppressed sequence

    Description
    NR_003545.1: This RefSeq was removed because it is now thought that this transcript represents a coding variant on another locus, SHLD3.
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