TRAPPC3 trafficking protein particle complex subunit 3 [Homo sapiens (human)] - Gene

Summary

Official Symbol: TRAPPC3provided by HGNC
Official Full Name: trafficking protein particle complex subunit 3provided by HGNC
Primary source: HGNC:HGNC:19942
See related: Ensembl:ENSG00000054116 MIM:610955; AllianceGenome:HGNC:19942
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: BET3
Summary: This gene encodes a component of the trafficking protein particle complex, which tethers transport vesicles to the cis-Golgi membrane. The encoded protein participates in the regulation of transport from the endoplasmic reticulum to the Golgi apparatus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2012]
Expression: Ubiquitous expression in thyroid (RPKM 23.9), adrenal (RPKM 19.7) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 1p34.3

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	1	NC_000001.11 (36136572..36156053, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	1	NC_060925.1 (35999451..36018932, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (36602173..36621654, complement)

Chromosome 1 - NC_000001.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TRAPPC3 expression in healthy human palatal mucosa is strongly negatively correlated with serum cotinine levels.
Title: Whole transcriptome analysis of smoker palatal mucosa identifies multiple downregulated innate immunity genes.
crystal structure
Title: Structure of palmitoylated BET3: insights into TRAPP complex assembly and membrane localization.
Bet3 functions as a cytosolic factor participating in transport from the ER to the Golgi apparatus
Title: Mammalian Bet3 functions as a cytosolic factor participating in transport from the ER to the Golgi apparatus.
mBet3p is required for the tethering and fusion of COPII vesicles to each other.
Title: mBet3p is required for homotypic COPII vesicle tethering in mammalian cells.
Bet3 has strong self-palmitoylating activity
Title: Unique self-palmitoylation activity of the transport protein particle component Bet3: a mechanism required for protein stability.
The crystal structure of human Bet3-Tpc6B heterodimer presented here represents a core sub-complex in the assembly of TRAPP.
Title: Structure of the Bet3-Tpc6B core of TRAPP: two Tpc6 paralogs form trimeric complexes with Bet3 and Mum2.

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Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SHGC-57691 (e-PCR)
- UniSTS:10170

RH80455 (e-PCR)
- UniSTS:91854

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in COPII vesicle coating	NAS Non-traceable Author Statement more info	PubMed
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport	NAS Non-traceable Author Statement more info	PubMed
involved_in intra-Golgi vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle coating	NAS Non-traceable Author Statement more info	PubMed
involved_in vesicle tethering	NAS Non-traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	IDA Inferred from Direct Assay more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
part_of TRAPP complex	IBA Inferred from Biological aspect of Ancestor more info
part_of TRAPP complex	IDA Inferred from Direct Assay more info	PubMed
part_of TRAPPII protein complex	NAS Non-traceable Author Statement more info	PubMed
part_of TRAPPIII protein complex	NAS Non-traceable Author Statement more info	PubMed
is_active_in cis-Golgi network membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	NAS Non-traceable Author Statement more info	PubMed
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IDA Inferred from Direct Assay more info
located_in cytosol	TAS Traceable Author Statement more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: trafficking protein particle complex subunit 3

Names: trafficking protein particle complex 3

NCBI Reference Sequences (RefSeq)

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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

NG_052857.1 RefSeqGene

Range

11568..24482

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001270894.2 → NP_001257823.1 trafficking protein particle complex subunit 3 isoform 2

See identical proteins and their annotated locations for NP_001257823.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the coding region, compared to variant 1. The encoded isoform (2) is longer than isoform 1.

Source sequence(s)

BC007662, CB053319, CD251784

Consensus CDS

CCDS72758.1

UniProtKB/TrEMBL

A0A087WWM0

Related

ENSP00000480332.1, ENST00000616395.4

Conserved Domains (1) summary

cd14942
Location:15 → 177

TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex
NM_001270895.2 → NP_001257824.1 trafficking protein particle complex subunit 3 isoform 3

See identical proteins and their annotated locations for NP_001257824.1

Status: REVIEWED

Description

Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an in-frame downstream start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1. Variants 3 and 4 encode the same isoform (3).

Source sequence(s)

BC007662, BM451581, CB053319

Consensus CDS

CCDS59194.1

UniProtKB/Swiss-Prot

O43617

Related

ENSP00000480648.1, ENST00000617904.4

Conserved Domains (1) summary

cd14942
Location:1 → 123

TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex
NM_001270896.2 → NP_001257825.1 trafficking protein particle complex subunit 3 isoform 3

See identical proteins and their annotated locations for NP_001257825.1

Status: REVIEWED

Description

Transcript Variant: This variant (4) uses an alternate in-frame splice site in the 5' coding region and uses a downstream in-frame start codon compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1. Variants 3 and 4 encode the same isoform (3).

Source sequence(s)

BC007662, BG704657, BI462429, BI762992, CB053319

Consensus CDS

CCDS59194.1

UniProtKB/Swiss-Prot

O43617

Related

ENSP00000362256.1, ENST00000373162.5

Conserved Domains (1) summary

cd14942
Location:1 → 123

TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex
NM_001270897.2 → NP_001257826.1 trafficking protein particle complex subunit 3 isoform 4

See identical proteins and their annotated locations for NP_001257826.1

Status: REVIEWED

Description

Transcript Variant: This variant (5) lacks two exons 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)

BC007662, BG704657, CB053319, T26006

Consensus CDS

CCDS72757.1

UniProtKB/TrEMBL

A0A087WYS5

Related

ENSP00000482052.1, ENST00000616074.4

Conserved Domains (1) summary

cd14942
Location:15 → 103

TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex
NM_014408.5 → NP_055223.1 trafficking protein particle complex subunit 3 isoform 1

See identical proteins and their annotated locations for NP_055223.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) encodes isoform (1).

Source sequence(s)

BC007662, BG704657

Consensus CDS

CCDS404.1

UniProtKB/Swiss-Prot

A6NDN0, B2RDN2, D3DPS2, O43617

Related

ENSP00000362261.3, ENST00000373166.8

Conserved Domains (1) summary

cd14942
Location:15 → 169

TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex

RNA

NR_073097.2 RNA Sequence

Status: REVIEWED

Description

Transcript Variant: This variant (7) differs at the 5' end and lacks two internal exons, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region found in variant 1.

Source sequence(s)

BC007662, BG704657, BI462429, CB053319, HY104588
NR_073098.2 RNA Sequence

Status: REVIEWED

Description

Transcript Variant: This variant (6) lacks three internal exons, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region found in variant 1.

Source sequence(s)

AA446176, BC007662, BG704657, CB053319