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Aliases for ERGIC3 Gene

Aliases for ERGIC3 Gene

  • ERGIC And Golgi 3 2 3 5
  • Serologically Defined Breast Cancer Antigen NY-BR-84 3 4
  • Serologically Defined Breast Cancer Antigen 84 2 3
  • C20orf47 3 4
  • SDBCAG84 3 4
  • Endoplasmic Reticulum-Golgi Intermediate Compartment Protein 3 3
  • Endoplasmic Reticulum-Localized Protein ERp43 3
  • Chromosome 20 Open Reading Frame 47 2
  • DJ477O4.2 3
  • NY-BR-84 3
  • C2orf47 3
  • PRO0989 3
  • CGI-54 3
  • Erv46 3
  • ERV46 4

External Ids for ERGIC3 Gene

Previous HGNC Symbols for ERGIC3 Gene

  • SDBCAG84
  • C20orf47

Previous GeneCards Identifiers for ERGIC3 Gene

  • GC20P033589
  • GC20P034129
  • GC20P030907

Summaries for ERGIC3 Gene

GeneCards Summary for ERGIC3 Gene

ERGIC3 (ERGIC And Golgi 3) is a Protein Coding gene. An important paralog of this gene is ERGIC2.

UniProtKB/Swiss-Prot for ERGIC3 Gene

  • Possible role in transport between endoplasmic reticulum and Golgi.

Gene Wiki entry for ERGIC3 Gene

Additional gene information for ERGIC3 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ERGIC3 Gene

Genomics for ERGIC3 Gene

GeneHancer (GH) Regulatory Elements for ERGIC3 Gene

Promoters and enhancers for ERGIC3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH20J035541 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 663.5 +0.1 78 1.8 HDGF ARID4B SIN3A DMAP1 YY1 SLC30A9 POLR2B ZNF143 KLF13 SP3 ERGIC3 PIR52983 CPNE1 RBM12 RBM39 TRPC4AP AAR2 EDEM2
GH20J035738 Promoter/Enhancer 3.3 UCNEbase EPDnew FANTOM5 Ensembl ENCODE dbSUPER 87.4 +199.7 199702 7 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 RBM39 CPNE1 RBM12 ERGIC3 AAR2 TRPC4AP RPL36P4 EDEM2 PHF20 EIF6
GH20J035764 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 50.6 +227.5 227524 9.2 MLX FEZF1 DMAP1 IRF4 YY1 SLC30A9 E2F8 ZNF416 ZNF548 SP3 PHF20 ENSG00000283527 CPNE1 RBM12 RBM39 NCOA6 ERGIC3 TRPC4AP AAR2 DLGAP4-AS1
GH20J035283 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 43.6 -256.8 -256841 3.9 MLX ZFP64 DMAP1 YY1 SLC30A9 E2F8 ZNF143 SP3 NFYC MEF2D EIF6 FAM83C-AS1 RBM12 RBM39 ERGIC3 NCOA6 CPNE1 TRPC4AP AAR2 RPL36P4
GH20J034954 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 31.8 -586.1 -586076 2.7 CLOCK MLX ZFP64 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 SP3 MYH7B GSS RBM12 CPNE1 NCOA6 ERGIC3 RPL36P4 TRPC4AP ENSG00000272945 PROCR
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ERGIC3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ERGIC3 gene promoter:
  • CUTL1
  • XBP-1
  • Pax-6
  • Ik-1
  • LCR-F1
  • HNF-1
  • HNF-1A
  • AML1a

Genomic Locations for ERGIC3 Gene

Genomic Locations for ERGIC3 Gene
chr20:35,542,021-35,557,634
(GRCh38/hg38)
Size:
15,614 bases
Orientation:
Plus strand
chr20:34,129,770-34,145,405
(GRCh37/hg19)
Size:
15,636 bases
Orientation:
Plus strand

Genomic View for ERGIC3 Gene

Genes around ERGIC3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ERGIC3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ERGIC3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ERGIC3 Gene

Proteins for ERGIC3 Gene

  • Protein details for ERGIC3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y282-ERGI3_HUMAN
    Recommended name:
    Endoplasmic reticulum-Golgi intermediate compartment protein 3
    Protein Accession:
    Q9Y282
    Secondary Accessions:
    • Q5JWS3
    • Q6ZWP7
    • Q9H276
    • Q9P1L3

    Protein attributes for ERGIC3 Gene

    Size:
    383 amino acids
    Molecular mass:
    43222 Da
    Quaternary structure:
    • Interacts with ERGIC1/ERGIC32.
    SequenceCaution:
    • Sequence=AAF71038.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAG48265.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for ERGIC3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ERGIC3 Gene

Post-translational modifications for ERGIC3 Gene

  • Glycosylation at Asn266 and isoforms=3241
  • Ubiquitination at isoforms=2, 315 and Lys8
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for ERGIC3 Gene

Domains & Families for ERGIC3 Gene

Gene Families for ERGIC3 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for ERGIC3 Gene

Blocks:
InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q9Y282

UniProtKB/Swiss-Prot:

ERGI3_HUMAN :
  • Belongs to the ERGIC family.
Family:
  • Belongs to the ERGIC family.
genes like me logo Genes that share domains with ERGIC3: view

Function for ERGIC3 Gene

Molecular function for ERGIC3 Gene

UniProtKB/Swiss-Prot Function:
Possible role in transport between endoplasmic reticulum and Golgi.

Phenotypes From GWAS Catalog for ERGIC3 Gene

genes like me logo Genes that share phenotypes with ERGIC3: view

Animal Model Products

CRISPR Products

miRNA for ERGIC3 Gene

miRTarBase miRNAs that target ERGIC3

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ERGIC3

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ERGIC3 Gene

Localization for ERGIC3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ERGIC3 Gene

Endoplasmic reticulum-Golgi intermediate compartment membrane; Multi-pass membrane protein. Golgi apparatus, cis-Golgi network membrane; Multi-pass membrane protein. Endoplasmic reticulum membrane; Multi-pass membrane protein. Note=Cycles between the endoplasmic reticulum and the Golgi.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ERGIC3 gene
Compartment Confidence
golgi apparatus 5
endoplasmic reticulum 4
plasma membrane 3
nucleus 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for ERGIC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005789 endoplasmic reticulum membrane IEA --
GO:0005794 Golgi apparatus IEA --
GO:0016020 membrane HDA,IEA 19946888
GO:0016021 integral component of membrane IEA --
GO:0033116 endoplasmic reticulum-Golgi intermediate compartment membrane IEA --
genes like me logo Genes that share ontologies with ERGIC3: view

Pathways & Interactions for ERGIC3 Gene

SuperPathways for ERGIC3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ERGIC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016192 vesicle-mediated transport IEA --
genes like me logo Genes that share ontologies with ERGIC3: view

No data available for Pathways by source and SIGNOR curated interactions for ERGIC3 Gene

Drugs & Compounds for ERGIC3 Gene

No Compound Related Data Available

Transcripts for ERGIC3 Gene

mRNA/cDNA for ERGIC3 Gene

Unigene Clusters for ERGIC3 Gene

ERGIC and golgi 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ERGIC3

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ERGIC3 Gene

No ASD Table

Relevant External Links for ERGIC3 Gene

GeneLoc Exon Structure for
ERGIC3
ECgene alternative splicing isoforms for
ERGIC3

Expression for ERGIC3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ERGIC3 Gene

Protein differential expression in normal tissues from HIPED for ERGIC3 Gene

This gene is overexpressed in Bone (13.9), Stomach (8.8), and Lung (7.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ERGIC3 Gene



Protein tissue co-expression partners for ERGIC3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ERGIC3 Gene:

ERGIC3

SOURCE GeneReport for Unigene cluster for ERGIC3 Gene:

Hs.472558

Evidence on tissue expression from TISSUES for ERGIC3 Gene

  • Nervous system(4.9)
  • Skin(4.7)
  • Liver(4.6)
  • Intestine(4.5)
  • Lung(3.6)
  • Kidney(2.8)
  • Eye(2.5)
  • Pancreas(2.3)
  • Thyroid gland(2.1)
  • Gall bladder(2)
genes like me logo Genes that share expression patterns with ERGIC3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ERGIC3 Gene

Orthologs for ERGIC3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for ERGIC3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ERGIC3 34 33
  • 99.83 (n)
OneToOne
dog
(Canis familiaris)
Mammalia ERGIC3 34 33
  • 93.21 (n)
OneToOne
cow
(Bos Taurus)
Mammalia ERGIC3 34 33
  • 92.08 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Ergic3 16 34 33
  • 91.56 (n)
rat
(Rattus norvegicus)
Mammalia Ergic3 33
  • 91.38 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia ERGIC3 34
  • 91 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia ERGIC3 34
  • 90 (a)
OneToOne
chicken
(Gallus gallus)
Aves -- 34
  • 90 (a)
OneToMany
-- 34
  • 84 (a)
OneToMany
-- 34
  • 82 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia ERGIC3 34
  • 89 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ergic3 33
  • 73.8 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.15764 33
zebrafish
(Danio rerio)
Actinopterygii ergic3 34 33
  • 76.98 (n)
OneToOne
zgc55762 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.4408 33
fruit fly
(Drosophila melanogaster)
Insecta CG7011 34 33
  • 54.91 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012144 33
  • 53.75 (n)
worm
(Caenorhabditis elegans)
Secernentea erv-46 34 33
  • 49.34 (n)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes ERV46 34
  • 36 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G36050 33
  • 58.78 (n)
rice
(Oryza sativa)
Liliopsida Os05g0490200 33
  • 55.47 (n)
Os.22690 33
corn
(Zea mays)
Liliopsida Zm.13676 33
wheat
(Triticum aestivum)
Liliopsida Ta.23108 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.4931 34
  • 56 (a)
OneToOne
Species where no ortholog for ERGIC3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for ERGIC3 Gene

ENSEMBL:
Gene Tree for ERGIC3 (if available)
TreeFam:
Gene Tree for ERGIC3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for ERGIC3: view image

Paralogs for ERGIC3 Gene

Paralogs for ERGIC3 Gene

(2) SIMAP similar genes for ERGIC3 Gene using alignment to 13 proteins:

  • ERGI3_HUMAN
  • A2TJK5_HUMAN
  • A6PVJ2_HUMAN
  • A6PVJ3_HUMAN
  • E9PFA8_HUMAN
  • H0Y5K5_HUMAN
  • H0Y621_HUMAN
  • H0Y6Z0_HUMAN
  • H0Y802_HUMAN
  • H7BXI5_HUMAN
  • Q5JWS0_HUMAN
  • Q5JWS1_HUMAN
  • Q5JWS2_HUMAN
genes like me logo Genes that share paralogs with ERGIC3: view

Variants for ERGIC3 Gene

Sequence variations from dbSNP and Humsavar for ERGIC3 Gene

SNP ID Clin Chr 20 pos Variation AA Info Type
VAR_036553 A colorectal cancer sample p.Thr297Lys
rs1000255695 -- 35,540,665(+) G/A upstream_transcript_variant
rs1000332778 -- 35,556,787(+) A/C intron_variant
rs1000435338 -- 35,546,795(+) A/G intron_variant
rs1000540351 -- 35,553,689(+) C/G/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for ERGIC3 Gene

Variant ID Type Subtype PubMed ID
nsv1062839 CNV loss 25217958
nsv3364 CNV insertion 18451855
nsv517785 CNV loss 19592680
nsv526796 CNV loss 19592680

Variation tolerance for ERGIC3 Gene

Residual Variation Intolerance Score: 10.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.45; 9.83% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ERGIC3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ERGIC3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ERGIC3 Gene

Disorders for ERGIC3 Gene

Additional Disease Information for ERGIC3

No disorders were found for ERGIC3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ERGIC3 Gene

Publications for ERGIC3 Gene

  1. Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics. (PMID: 10810093) Lai CH … Lin W (Genome research 2000) 2 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. Proteomics of endoplasmic reticulum-Golgi intermediate compartment (ERGIC) membranes from brefeldin A-treated HepG2 cells identifies ERGIC-32, a new cycling protein that interacts with human Erv46. (PMID: 15308636) Breuza L … Hauri HP (The Journal of biological chemistry 2004) 3 4 58
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  5. The DNA sequence and comparative analysis of human chromosome 20. (PMID: 11780052) Deloukas P … Rogers J (Nature 2001) 3 4 58

Products for ERGIC3 Gene

Sources for ERGIC3 Gene

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