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ERGIC3 ERGIC and golgi 3 [ Homo sapiens (human) ]

Gene ID: 51614, updated on 11-Sep-2019

Summary

Official Symbol
ERGIC3provided by HGNC
Official Full Name
ERGIC and golgi 3provided by HGNC
Primary source
HGNC:HGNC:15927
See related
Ensembl:ENSG00000125991 MIM:616971
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
Erv46; CGI-54; C2orf47; PRO0989; C20orf47; NY-BR-84; SDBCAG84; dJ477O4.2
Expression
Ubiquitous expression in thyroid (RPKM 113.7), testis (RPKM 112.2) and 25 other tissues See more
Orthologs

Genomic context

See ERGIC3 in Genome Data Viewer
Location:
20q11.22
Exon count:
14
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (35542078..35557634)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (34129778..34145405)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene centrosomal protein 250 Neighboring gene CEP250 antisense RNA 1 Neighboring gene chromosome 20 open reading frame 173 Neighboring gene ribosomal protein L36 pseudogene 4 Neighboring gene fer-1 like family member 4 (pseudogene) Neighboring gene ribosomal protein L37 pseudogene 1 Neighboring gene sperm associated antigen 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

NHGRI GWAS Catalog

Description
Biological, clinical and population relevance of 95 loci for blood lipids.
NHGRI GWA Catalog
Discovery and refinement of loci associated with lipid levels.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 interacts with ERGIC3; predicted interaction to be within the endoplasmic reticulum to Golgi transport PubMed
env HIV-1 gp160 is identified to have a physical interaction with ERGIC and golgi 3 (ERGIC3) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Process Evidence Code Pubs
ER to Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
retrograde vesicle-mediated transport, Golgi to ER IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
COPII-coated ER to Golgi transport vesicle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endoplasmic reticulum-Golgi intermediate compartment membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of Golgi membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
membrane HDA PubMed 

General protein information

Preferred Names
endoplasmic reticulum-Golgi intermediate compartment protein 3
Names
endoplasmic reticulum-localized protein ERp43
serologically defined breast cancer antigen 84
serologically defined breast cancer antigen NY-BR-84

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_015966.3NP_057050.1  endoplasmic reticulum-Golgi intermediate compartment protein 3 isoform b

    See identical proteins and their annotated locations for NP_057050.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
    Source sequence(s)
    AF077030
    Consensus CDS
    CCDS13257.1
    UniProtKB/Swiss-Prot
    Q9Y282
    UniProtKB/TrEMBL
    A2TJK5
    Related
    ENSP00000341358.2, ENST00000348547.6
    Conserved Domains (2) summary
    pfam07970
    Location:145363
    COPIIcoated_ERV; Endoplasmic reticulum vesicle transporter
    pfam13850
    Location:793
    ERGIC_N; Endoplasmic Reticulum-Golgi Intermediate Compartment (ERGIC)
  2. NM_198398.2NP_938408.1  endoplasmic reticulum-Golgi intermediate compartment protein 3 isoform a

    See identical proteins and their annotated locations for NP_938408.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AL161963, BU528333
    Consensus CDS
    CCDS13258.1
    UniProtKB/Swiss-Prot
    Q9Y282
    Related
    ENSP00000349970.4, ENST00000357394.8
    Conserved Domains (2) summary
    pfam07970
    Location:145368
    COPIIcoated_ERV; Endoplasmic reticulum vesicle transporter
    pfam13850
    Location:793
    ERGIC_N; Endoplasmic Reticulum-Golgi Intermediate Compartment (ERGIC)

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p13 Primary Assembly

    Range
    35542078..35557634
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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