This locus represents naturally occurring readthrough transcription between the neighboring MYZAP (myocardial zonula adherens protein) and POLR2M (polymerase (RNA) II (DNA directed) polypeptide M) genes on chromosome 15. Alternative splicing results in multiple readthrough transcript variants. Readthrough variants may encode proteins that share sequence identity with the upstre... See more...

Aliases for GCOM1 Gene

Aliases for GCOM1 Gene

  • GRINL1A Complex Locus 1 2 3 5 13
  • MYZAP-POLR2M Readthrough 2 3
  • Glutamate Receptor, Ionotropic, N-Methyl D-Aspartate-Like 1A Combined Protein 3
  • DNA-Directed RNA Polymerase II Subunit GRINL1A 3
  • DNA-Directed RNA Polymerase II Subunit M 3
  • Glutamate Receptor-Like Protein 1A 3
  • NMDAR1 Subunit-Interacting Protein 3
  • Myocardial Zonula Adherens Protein 3
  • GRINL1A Combined Protein Gcom12 3
  • GRINL1A Combined Protein 15 13
  • GRINL1A Combined Protein 3
  • MYZAP-POLR2M Protein 3
  • MYZAP-POLR2M 3
  • GRINL1A 3
  • Gcom2 3
  • MYZAP 3
  • Gcom 3

External Ids for GCOM1 Gene

Previous GeneCards Identifiers for GCOM1 Gene

  • GC15P055675
  • GC15P057884

Summaries for GCOM1 Gene

Entrez Gene Summary for GCOM1 Gene

  • This locus represents naturally occurring readthrough transcription between the neighboring MYZAP (myocardial zonula adherens protein) and POLR2M (polymerase (RNA) II (DNA directed) polypeptide M) genes on chromosome 15. Alternative splicing results in multiple readthrough transcript variants. Readthrough variants may encode proteins that share sequence identity with the upstream gene product or with both the upstream and downstream gene products. Some readthrough transcript variants are also expected to be candidates for nonsense-mediated decay (NMD). [provided by RefSeq, Oct 2013]

GeneCards Summary for GCOM1 Gene

GCOM1 (GRINL1A Complex Locus 1) is a Protein Coding gene. Diseases associated with GCOM1 include Suppression Of Tumorigenicity 12. An important paralog of this gene is MYZAP.

Additional gene information for GCOM1 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for GCOM1 Gene

Genomics for GCOM1 Gene

GeneHancer (GH) Regulatory Elements for GCOM1 Gene

Promoters and enhancers for GCOM1 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
GH15J057592 Enhancer 0.5 ENCODE dbSUPER 500.7 -1.8 -1806 0.2 GATA3 FOXA1 GCOM1 MYZAP RPS13P7
GH15J057590 Enhancer 0.4 ENCODE dbSUPER 500.7 -1.4 -1436 0.1 ZNF513 GCOM1 MYZAP RPS13P7
GH15J057633 Enhancer 0.7 Ensembl ENCODE dbSUPER 46.5 +43.2 43153 2.7 CTCF RAD21 NR3C1 GCOM1 POLR2M RNU6-844P MYZAP piR-50444-130 RF00066-064
GH15J057653 Enhancer 1 FANTOM5 Ensembl ENCODE dbSUPER 22.9 +62.8 62816 2 CREB1 E2F1 ATF2 ATF1 CEBPB GCOM1 POLR2M RF00066-064 piR-50444-130 MYZAP
GH15J057591 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE dbSUPER 12.1 +4.7 4703 11.2 ZIC2 ZBTB26 OSR2 EZH2 CTCF GATA3 POLR2A CEBPG FOS PHF8 MYZAP GCOM1 RNU6-844P piR-50444-130
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around GCOM1 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for GCOM1

Top Transcription factor binding sites by QIAGEN in the GCOM1 gene promoter:
  • AML1a
  • AREB6
  • C/EBPalpha
  • FOXJ2
  • FOXJ2 (long isoform)
  • p53
  • PPAR-alpha
  • TBP

Genomic Locations for GCOM1 Gene

Genomic Locations for GCOM1 Gene
chr15:57,591,904-57,717,557
(GRCh38/hg38)
Size:
125,654 bases
Orientation:
Plus strand
chr15:57,884,102-58,009,755
(GRCh37/hg19)
Size:
125,654 bases
Orientation:
Plus strand

Genomic View for GCOM1 Gene

Genes around GCOM1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GCOM1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GCOM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GCOM1 Gene

Proteins for GCOM1 Gene

  • Protein details for GCOM1 Gene (UniProtKB/TrEMBL)

    Protein Symbol:
    H8Y6P7-H8Y6P7_HUMAN
    Recommended name:
    GRINL1A combined protein 15
    Protein Accession:
    H8Y6P7

    Protein attributes for GCOM1 Gene

    Size:
    765 amino acids
    Molecular mass:
    87807 Da
    Quaternary structure:
    No Data Available

neXtProt entry for GCOM1 Gene

Post-translational modifications for GCOM1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for GCOM1 Gene

Domains & Families for GCOM1 Gene

Gene Families for GCOM1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for GCOM1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for GCOM1 Gene

GenScript: Design optimal peptide antigens:
  • GRINL1A upstream protein (GCOM1_HUMAN)
genes like me logo Genes that share domains with GCOM1: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for GCOM1 Gene

Function for GCOM1 Gene

Phenotypes From GWAS Catalog for GCOM1 Gene

genes like me logo Genes that share phenotypes with GCOM1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for GCOM1

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for GCOM1 Gene

Localization for GCOM1 Gene

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 GCOM1 gene
Compartment Confidence
mitochondrion 2
nucleus 2
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for GCOM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030864 cortical actin cytoskeleton IBA --
GO:0031674 I band IBA --
genes like me logo Genes that share ontologies with GCOM1: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for GCOM1 Gene

Pathways & Interactions for GCOM1 Gene

PathCards logo

SuperPathways for GCOM1 Gene

No Data Available

Interacting Proteins for GCOM1 Gene

STRING Interaction Network Preview (showing top 3 STRING interactants - click image to see details)
STRING Interaction Network
Selected Interacting proteins: ENSP00000465231 for GCOM1 Gene via STRING

;

Gene Ontology (GO) - Biological Process for GCOM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0035556 intracellular signal transduction IBA --
genes like me logo Genes that share ontologies with GCOM1: view

No data available for Pathways by source and SIGNOR curated interactions for GCOM1 Gene

Drugs & Compounds for GCOM1 Gene

No Compound Related Data Available

Transcripts for GCOM1 Gene

mRNA/cDNA for GCOM1 Gene

6 REFSEQ mRNAs :
20 NCBI additional mRNA sequence :
15 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for GCOM1

Alternative Splicing Database (ASD) splice patterns (SP) for GCOM1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14a · 14b ^ 15a · 15b · 15c · 15d ^ 16 ^ 17 ^ 18
SP1: - -
SP2: - - -
SP3:
SP4: - -
SP5: -

Relevant External Links for GCOM1 Gene

GeneLoc Exon Structure for
GCOM1

Expression for GCOM1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for GCOM1 Gene

mRNA differential expression in normal tissues according to GTEx for GCOM1 Gene

This gene is overexpressed in Heart - Left Ventricle (x7.8), Heart - Atrial Appendage (x6.2), and Esophagus - Mucosa (x4.8).

Protein differential expression in normal tissues from HIPED for GCOM1 Gene

This gene is overexpressed in Heart (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from MOPED for GCOM1 Gene



Protein tissue co-expression partners for GCOM1 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for GCOM1

Evidence on tissue expression from TISSUES for GCOM1 Gene

  • Heart(3)
genes like me logo Genes that share expression patterns with GCOM1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for GCOM1 Gene

Orthologs for GCOM1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for GCOM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia GCOM1 31
  • 100 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 31
  • 78 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 67 (a)
OneToMany
chicken
(Gallus gallus)
Aves GCOM1 30
  • 63.38 (n)
-- 31
  • 47 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 31
  • 40 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia myzap 30
  • 63.77 (n)
zebrafish
(Danio rerio)
Actinopterygii polr2m 31 30
  • 58.08 (n)
OneToMany
Species where no ortholog for GCOM1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • mouse (Mus musculus)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for GCOM1 Gene

ENSEMBL:
Gene Tree for GCOM1 (if available)
TreeFam:
Gene Tree for GCOM1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for GCOM1: view image

Paralogs for GCOM1 Gene

Paralogs for GCOM1 Gene

(5) SIMAP similar genes for GCOM1 Gene using alignment to 3 proteins:

  • H0YCD3_HUMAN
  • H3BTD5_HUMAN
  • H8Y6P7_HUMAN
genes like me logo Genes that share paralogs with GCOM1: view

Variants for GCOM1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for GCOM1 Gene

SNP ID Clinical significance and condition Chr 15 pos Variation AA Info Type
788145 Benign: not provided 57,714,656(+) G/A MISSENSE_VARIANT,NON_CODING_TRANSCRIPT_VARIANT,THREE_PRIME_UTR_VARIANT
790696 Benign: not provided 57,712,060(+) C/T MISSENSE_VARIANT,NON_CODING_TRANSCRIPT_VARIANT,INTRON_VARIANT
rs992189342 Likely Pathogenic: Primary dilated cardiomyopathy 57,618,106(+) C/A NONSENSE,NON_CODING_TRANSCRIPT_VARIANT

Additional dbSNP identifiers (rs#s) for GCOM1 Gene

Structural Variations from Database of Genomic Variants (DGV) for GCOM1 Gene

Variant ID Type Subtype PubMed ID
dgv1219n106 CNV deletion 24896259
dgv150n21 CNV loss 19592680
esv2034597 CNV deletion 18987734
esv2749736 CNV deletion 23290073
esv3307804 CNV mobile element insertion 20981092
esv3346438 CNV insertion 20981092
esv3636613 CNV loss 21293372
nsv1045611 CNV gain 25217958
nsv1054547 CNV gain 25217958
nsv1071212 CNV deletion 25765185
nsv1116765 CNV tandem duplication 24896259
nsv1127435 CNV deletion 24896259
nsv1129179 CNV insertion 24896259
nsv1130353 CNV deletion 24896259
nsv1134451 CNV deletion 24896259
nsv1138376 CNV deletion 24896259
nsv1140003 CNV deletion 24896259
nsv1141769 CNV insertion 24896259
nsv1142690 CNV deletion 24896259
nsv473762 CNV novel sequence insertion 20440878
nsv476074 CNV novel sequence insertion 20440878
nsv7266 OTHER inversion 18451855
nsv94840 CNV deletion 16902084
nsv957989 CNV deletion 24416366
nsv984076 CNV duplication 23825009

Variation tolerance for GCOM1 Gene

Residual Variation Intolerance Score: 90.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.02; 50.14% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for GCOM1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
GCOM1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for GCOM1 Gene

Disorders for GCOM1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for GCOM1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
suppression of tumorigenicity 12
  • st12
- elite association - COSMIC cancer census association via MalaCards
Search GCOM1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for GCOM1

genes like me logo Genes that share disorders with GCOM1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for GCOM1 Gene

Publications for GCOM1 Gene

  1. Genome-wide association study of coronary heart disease and its risk factors in 8,090 African Americans: the NHLBI CARe Project. (PMID: 21347282) Lettre G … Boerwinkle E (PLoS genetics 2011) 3 41 54
  2. GRINL1A colocalizes with N-methyl D-aspartate receptor NR1 subunit and reduces N-methyl D-aspartate toxicity. (PMID: 18849881) Roginski RS … Yang J (Neuroreport 2008) 2 3 54
  3. The human GRINL1A gene defines a complex transcription unit, an unusual form of gene organization in eukaryotes. (PMID: 15233991) Roginski RS … Rowen L (Genomics 2004) 2 3 54
  4. The human GCOM1 complex gene interacts with the NMDA receptor and internexin-alpha. (PMID: 29339073) Roginski RS … Yang J (Gene 2018) 3 54
  5. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein MY … Mann M (Cell 2015) 3 54

Products for GCOM1 Gene

Sources for GCOM1 Gene