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ERGIC1 endoplasmic reticulum-golgi intermediate compartment 1 [ Homo sapiens (human) ]

Gene ID: 57222, updated on 3-Apr-2024

Summary

Official Symbol
ERGIC1provided by HGNC
Official Full Name
endoplasmic reticulum-golgi intermediate compartment 1provided by HGNC
Primary source
HGNC:HGNC:29205
See related
Ensembl:ENSG00000113719 MIM:617946; AllianceGenome:HGNC:29205
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
AMC2; AMCN; NET24; ERGIC32; ERGIC-32
Summary
This gene encodes a cycling membrane protein which is an endoplasmic reticulum-golgi intermediate compartment (ERGIC) protein which interacts with other members of this protein family to increase their turnover. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in prostate (RPKM 69.0), adrenal (RPKM 49.7) and 25 other tissues See more
Orthologs
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Genomic context

See ERGIC1 in Genome Data Viewer
Location:
5q35.1
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (172834251..172952683)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (173374397..173492729)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (172261254..172379686)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr5:172194940-172195132 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16625 Neighboring gene VISTA enhancer hs1828 Neighboring gene uncharacterized LOC105377730 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23645 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172214701-172215202 Neighboring gene dual specificity phosphatase 1 Neighboring gene CRISPRi-validated cis-regulatory element chr5.4451 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172232818-172233634 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr5:172233916-172235115 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172246893-172247394 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172250515-172251016 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172251017-172251516 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16627 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16628 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16629 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:172262000-172262992 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:172262993-172263984 Neighboring gene uncharacterized LOC124901135 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:172276540-172277739 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:172281789-172282290 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:172285332-172285509 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172286171-172287171 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172290019-172290520 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:172304495-172305470 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:172305471-172306446 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23647 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172328739-172329249 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:172331587-172332786 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23648 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172341803-172342303 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172345389-172345890 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:172347219-172347863 Neighboring gene microRNA 10523 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16631 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23649 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:172370360-172370531 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr5:172382074-172383273 Neighboring gene RPL26L1 antisense RNA 1 Neighboring gene ribosomal protein L26 like 1 Neighboring gene inorganic pyrophosphatase 1 pseudogene

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
Arthrogryposis multiplex congenita 2, neurogenic type
MedGen: C5435650 OMIM: 208100 GeneReviews: Spinal Muscular Atrophy
Compare labs

EBI GWAS Catalog

Description
Genome-wide association study of chemotherapeutic agent-induced severe neutropenia/leucopenia for patients in Biobank Japan.
EBI GWAS Catalog
Genome-wide association study of chronic periodontitis in a general German population.
EBI GWAS Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 interacts with ERGIC1; predicted interaction to be within the endoplasmic reticulum to Golgi transport PubMed
Nef nef HIV-1 Nef is identified to have a physical interaction with endoplasmic reticulum-golgi intermediate compartment 1 (ERGIC1) 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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ39864, KIAA1181, MGC14345

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
is_active_in COPII-coated ER to Golgi transport vesicle IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
located_in endoplasmic reticulum-Golgi intermediate compartment IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum-Golgi intermediate compartment membrane IEA
Inferred from Electronic Annotation
more info
 
located_in intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
located_in membrane HDA PubMed 
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
endoplasmic reticulum-Golgi intermediate compartment protein 1
Names
ER-Golgi intermediate compartment 32 kDa protein
endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1
endoplasmic reticulum-golgi intermediate compartment 32 kDa protein

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.

mRNA and Protein(s)

  1. NM_001031711.3NP_001026881.1  endoplasmic reticulum-Golgi intermediate compartment protein 1

    See identical proteins and their annotated locations for NP_001026881.1

    Status: REVIEWED

    Source sequence(s)
    AB033007, BC014490, CD365875, DB443891
    Consensus CDS
    CCDS34292.1
    UniProtKB/Swiss-Prot
    Q969X5, Q9H0L0, Q9H2J2, Q9ULN9
    Related
    ENSP00000377374.3, ENST00000393784.8
    Conserved Domains (2) summary
    pfam07970
    Location:114271
    COPIIcoated_ERV; Endoplasmic reticulum vesicle transporter
    pfam13850
    Location:598
    ERGIC_N; Endoplasmic Reticulum-Golgi Intermediate Compartment (ERGIC)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    172834251..172952683
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047417410.1XP_047273366.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X8

    UniProtKB/TrEMBL
    A0A8I5KPY8
    Related
    ENSP00000509559.1, ENST00000686615.1
  2. XM_047417408.1XP_047273364.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X7

  3. XM_047417404.1XP_047273360.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X3

  4. XM_047417412.1XP_047273368.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X10

  5. XM_011534597.2XP_011532899.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X1

    Conserved Domains (2) summary
    pfam07970
    Location:128295
    COPIIcoated_ERV; Endoplasmic reticulum vesicle transporter
    pfam13850
    Location:31122
    ERGIC_N; Endoplasmic Reticulum-Golgi Intermediate Compartment (ERGIC)
  6. XM_047417406.1XP_047273362.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X5

  7. XM_047417405.1XP_047273361.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X4

  8. XM_017009655.2XP_016865144.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X2

  9. XM_047417403.1XP_047273359.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X2

  10. XM_047417407.1XP_047273363.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X6

  11. XM_047417411.1XP_047273367.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X9

    Related
    ENSP00000509817.1, ENST00000687901.1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    173374397..173492729
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054352954.1XP_054208929.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X8

    UniProtKB/TrEMBL
    A0A8I5KPY8
  2. XM_054352953.1XP_054208928.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X7

  3. XM_054352952.1XP_054208927.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X3

  4. XM_054352956.1XP_054208931.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X10

  5. XM_054352951.1XP_054208926.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X1

  6. XM_054352955.1XP_054208930.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X9

  7. XM_054352957.1XP_054208932.1  endoplasmic reticulum-Golgi intermediate compartment protein 1 isoform X11

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_020462.1: Suppressed sequence

    Description
    NM_020462.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.