Free for academic non-profit institutions. Other users need a Commercial license

Aliases for SMG5 Gene

Aliases for SMG5 Gene

  • SMG5, Nonsense Mediated MRNA Decay Factor 2 3 5
  • EST1-Like Protein B 3 4
  • LPTS-RP1 3 4
  • EST1B 3 4
  • Smg-5 Homolog, Nonsense Mediated MRNA Decay Factor (C. Elegans) 2
  • EST1 Telomerase Component Homolog B (S. Cerevisiae) 2
  • Smg-5 Homolog, Nonsense Mediated MRNA Decay Factor 3
  • EST1 Telomerase Component Homolog B 3
  • Ever Shorter Telomeres 1B 3
  • LPTS Interacting Protein 3
  • LPTS-Interacting Protein 4
  • Est1p-Like Protein B 3
  • SMG-5 Homolog 4
  • Protein SMG5 3
  • KIAA1089 4
  • LPTSRP1 3
  • HSMG-5 4
  • SMG-5 3

External Ids for SMG5 Gene

Previous GeneCards Identifiers for SMG5 Gene

  • GC01M154485
  • GC01M156219
  • GC01M127580

Summaries for SMG5 Gene

Entrez Gene Summary for SMG5 Gene

  • SMG5 is involved in nonsense-mediated mRNA decay (Ohnishi et al., 2003 [PubMed 14636577]).[supplied by OMIM, Mar 2008]

GeneCards Summary for SMG5 Gene

SMG5 (SMG5, Nonsense Mediated MRNA Decay Factor) is a Protein Coding gene. Among its related pathways are Gene Expression and Viral mRNA Translation. GO annotations related to this gene include protein phosphatase 2A binding. An important paralog of this gene is SMG6.

UniProtKB/Swiss-Prot for SMG5 Gene

  • Plays a role in nonsense-mediated mRNA decay. Does not have RNase activity by itself. Promotes dephosphorylation of UPF1. Together with SMG7 is thought to provide a link to the mRNA degradation machinery involving exonucleolytic pathways, and to serve as an adapter for UPF1 to protein phosphatase 2A (PP2A), thereby triggering UPF1 dephosphorylation. Necessary for TERT activity.

Gene Wiki entry for SMG5 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SMG5 Gene

Genomics for SMG5 Gene

Regulatory Elements for SMG5 Gene

Enhancers for SMG5 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01G156243 1.5 Ensembl ENCODE dbSUPER 71.5 +36.6 36555 4.7 HDGF PKNOX1 AGO1 YY1 TCF12 GLIS2 GATA2 ZNF143 KLF7 FOS SMG5 GLMP PAQR6 BGLAP
GH01G156276 1 Ensembl ENCODE 85.9 +6.0 5962 1.0 KLF17 CEBPG ZFHX2 GLIS2 POLR2A PATZ1 ZNF600 EZH2 EGR2 PAF1 SMG5 PAQR6 GLMP BGLAP SEMA4A ENSG00000252236 SLC25A44 TSACC CCT3 LMNA
GH01G156281 1.8 FANTOM5 ENCODE dbSUPER 23.5 -0.4 -373 4.4 MLX CREB3L1 ZFP64 DMAP1 YY1 ZNF143 ZNF263 SP3 NFYC TBX21 GLMP SMG5 SLC25A44 PAQR6 BGLAP ENSG00000252236 SEMA4A TSACC CCT3 KIAA0907
GH01G156262 1 ENCODE dbSUPER 21.9 +19.9 19860 1.4 PKNOX1 ZBTB21 RB1 FOSL1 ZNF316 ZNF366 SCRT2 NFE2 MAFK NFE2L2 GLMP SMG5 PAQR6 BGLAP PMF1 SEMA4A SLC25A44 ENSG00000252236 LMNA MEX3A
GH01G156486 2.1 FANTOM5 Ensembl ENCODE dbSUPER 5.1 -216.0 -215979 25.4 CREB3L1 MLX DMAP1 FEZF1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 ZNF263 RRNAD1 KIAA0907 LOC246784 ENSG00000271267 SSR2 GLMP MEF2D SYT11 BCAN NAXE
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SMG5 on UCSC Golden Path with GeneCards custom track

Promoters for SMG5 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000014177 185 1801 MLX CREB3L1 ZFP64 DMAP1 YY1 ZNF143 ZNF263 SP3 NFYC TBX21

Genomic Location for SMG5 Gene

Chromosome:
1
Start:
156,249,224 bp from pter
End:
156,282,885 bp from pter
Size:
33,662 bases
Orientation:
Minus strand

Genomic View for SMG5 Gene

Genes around SMG5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SMG5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SMG5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SMG5 Gene

Proteins for SMG5 Gene

  • Protein details for SMG5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UPR3-SMG5_HUMAN
    Recommended name:
    Protein SMG5
    Protein Accession:
    Q9UPR3
    Secondary Accessions:
    • D3DVB7
    • Q5QJE7
    • Q659C7
    • Q8IXC0
    • Q8IY09
    • Q96IJ7

    Protein attributes for SMG5 Gene

    Size:
    1016 amino acids
    Molecular mass:
    113928 Da
    Quaternary structure:
    • Interacts with TERT, PPP2CA and SMG1. Part of a complex that contains SMG1, SMG5, SMG7, PPP2CA, a short isoform of UPF3A (isoform UPF3AS, but not isoform UPF3AL) and phosphorylated UPF1. Not detected in complexes that contain unphosphorylated UPF1.
    SequenceCaution:
    • Sequence=BAA83041.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SMG5 Gene

neXtProt entry for SMG5 Gene

Post-translational modifications for SMG5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SMG5 Gene

No data available for DME Specific Peptides for SMG5 Gene

Domains & Families for SMG5 Gene

Protein Domains for SMG5 Gene

Suggested Antigen Peptide Sequences for SMG5 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SMG5: view

No data available for Gene Families and UniProtKB/Swiss-Prot for SMG5 Gene

Function for SMG5 Gene

Molecular function for SMG5 Gene

UniProtKB/Swiss-Prot Function:
Plays a role in nonsense-mediated mRNA decay. Does not have RNase activity by itself. Promotes dephosphorylation of UPF1. Together with SMG7 is thought to provide a link to the mRNA degradation machinery involving exonucleolytic pathways, and to serve as an adapter for UPF1 to protein phosphatase 2A (PP2A), thereby triggering UPF1 dephosphorylation. Necessary for TERT activity.

Gene Ontology (GO) - Molecular Function for SMG5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004540 ribonuclease activity IBA --
GO:0005515 protein binding IPI 12699629
GO:0031625 ubiquitin protein ligase binding IPI 16809764
GO:0042162 telomeric DNA binding IDA 17916692
GO:0042826 histone deacetylase binding IPI 16809764
genes like me logo Genes that share ontologies with SMG5: view
genes like me logo Genes that share phenotypes with SMG5: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SMG5 Gene

Localization for SMG5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SMG5 Gene

Cytoplasm. Nucleus. Note=Predominantly cytoplasmic, and nuclear. Shuttles between nucleus and cytoplasm. Detected in cytoplasmic mRNA decay bodies.

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 SMG5 gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 1
extracellular 1
mitochondrion 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for SMG5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 P-body IDA --
GO:0005634 nucleus IDA 14636577
GO:0005697 telomerase holoenzyme complex IBA --
GO:0005737 cytoplasm IDA 14636577
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with SMG5: view

Pathways & Interactions for SMG5 Gene

genes like me logo Genes that share pathways with SMG5: view

Pathways by source for SMG5 Gene

Gene Ontology (GO) - Biological Process for SMG5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS 16488880
GO:0006406 mRNA export from nucleus TAS 16488880
GO:0032204 regulation of telomere maintenance IMP 16809764
GO:0032210 regulation of telomere maintenance via telomerase TAS 16507993
GO:0035303 regulation of dephosphorylation IMP 14636577
genes like me logo Genes that share ontologies with SMG5: view

No data available for SIGNOR curated interactions for SMG5 Gene

Drugs & Compounds for SMG5 Gene

No Compound Related Data Available

Transcripts for SMG5 Gene

Unigene Clusters for SMG5 Gene

Smg-5 homolog, nonsense mediated mRNA decay factor (C. elegans):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SMG5 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19a · 19b · 19c ^ 20 ^
SP1: - - -
SP2: - - - - - -
SP3: -
SP4: - -
SP5:
SP6:
SP7:
SP8:
SP9:

ExUns: 21 ^ 22 ^ 23 ^ 24a · 24b ^ 25 ^ 26a · 26b · 26c
SP1: -
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:

Relevant External Links for SMG5 Gene

GeneLoc Exon Structure for
SMG5
ECgene alternative splicing isoforms for
SMG5

Expression for SMG5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SMG5 Gene

Protein differential expression in normal tissues from HIPED for SMG5 Gene

This gene is overexpressed in Lung (44.0), Placenta (9.2), and Pancreas (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SMG5 Gene



Protein tissue co-expression partners for SMG5 Gene

NURSA nuclear receptor signaling pathways regulating expression of SMG5 Gene:

SMG5

SOURCE GeneReport for Unigene cluster for SMG5 Gene:

Hs.516837

mRNA Expression by UniProt/SwissProt for SMG5 Gene:

Q9UPR3-SMG5_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for SMG5 Gene

  • Nervous system(4.6)
  • Liver(4.3)
  • Muscle(4.3)
  • Lung(2.9)
genes like me logo Genes that share expression patterns with SMG5: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for SMG5 Gene

Orthologs for SMG5 Gene

This gene was present in the common ancestor of animals.

Orthologs for SMG5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SMG5 34 35
  • 99.84 (n)
cow
(Bos Taurus)
Mammalia SMG5 34 35
  • 93.01 (n)
dog
(Canis familiaris)
Mammalia SMG5 34 35
  • 90.87 (n)
oppossum
(Monodelphis domestica)
Mammalia SMG5 35
  • 89 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Smg5 34 16 35
  • 88.18 (n)
rat
(Rattus norvegicus)
Mammalia Smg5 34
  • 87.95 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SMG5 35
  • 60 (a)
OneToOne
chicken
(Gallus gallus)
Aves SMG5 34 35
  • 75.35 (n)
lizard
(Anolis carolinensis)
Reptilia SMG5 35
  • 70 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia smg5 34
  • 71.21 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.16535 34
zebrafish
(Danio rerio)
Actinopterygii smg5 35
  • 63 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Smg5 35
  • 19 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 37 (a)
OneToMany
-- 35
  • 24 (a)
OneToMany
Species where no ortholog for SMG5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SMG5 Gene

ENSEMBL:
Gene Tree for SMG5 (if available)
TreeFam:
Gene Tree for SMG5 (if available)

Paralogs for SMG5 Gene

Paralogs for SMG5 Gene

Pseudogenes.org Pseudogenes for SMG5 Gene

genes like me logo Genes that share paralogs with SMG5: view

Variants for SMG5 Gene

Sequence variations from dbSNP and Humsavar for SMG5 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000026223 -- 156,261,113(+) GAGCA(C/T)ACTCC intron-variant
rs1000164096 -- 156,255,040(+) GAGCC(A/G)AGATA intron-variant
rs1000195361 -- 156,254,219(+) ACCAC(C/T)GTACT intron-variant
rs1000242419 -- 156,291,240(+) AGTGC(A/G)TAAAC intron-variant
rs1000247671 -- 156,254,486(+) TCACT(C/G)AGGCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SMG5 Gene

Variant ID Type Subtype PubMed ID
nsv509524 CNV insertion 20534489
nsv547968 CNV loss 21841781

Variation tolerance for SMG5 Gene

Residual Variation Intolerance Score: 4.73% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.85; 48.10% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SMG5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SMG5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SMG5 Gene

Disorders for SMG5 Gene

Relevant External Links for SMG5

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SMG5

No disorders were found for SMG5 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SMG5 Gene

Publications for SMG5 Gene

  1. SMG7 acts as a molecular link between mRNA surveillance and mRNA decay. (PMID: 15546618) Unterholzner L. … Izaurralde E. (Mol. Cell 2004) 3 4 22 64
  2. Functional conservation of the telomerase protein Est1p in humans. (PMID: 12699629) Snow B.E. … Harrington L. (Curr. Biol. 2003) 2 3 4 64
  3. Phosphorylation of hUPF1 induces formation of mRNA surveillance complexes containing hSMG-5 and hSMG-7. (PMID: 14636577) Ohnishi T. … Ohno S. (Mol. Cell 2003) 3 4 22 64
  4. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4 64
  5. Structures of the PIN domains of SMG6 and SMG5 reveal a nuclease within the mRNA surveillance complex. (PMID: 17053788) Glavan F. … Conti E. (EMBO J. 2006) 3 4 64

Products for SMG5 Gene

Sources for SMG5 Gene

Content
Loading form....