Details for: SMG5

Gene ID: 23381

Symbol: SMG5

Ensembl ID: ENSG00000198952

Description: SMG5 nonsense mediated mRNA decay factor

Associated with

Cells (max top 100)

(Marker Scores and respective Thresholds are uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Cell Name: germ cell (CL0000586)
    Fold Change: 1.59
    Marker Score: 2,784
  • Cell Name: mural cell (CL0008034)
    Fold Change: 1.47
    Marker Score: 168,210
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: 1.17
    Marker Score: 71,715
  • Cell Name: dopaminergic neuron (CL0000700)
    Fold Change: 1.14
    Marker Score: 11,791
  • Cell Name: L5 extratelencephalic projecting glutamatergic cortical neuron (CL4023041)
    Fold Change: 1.11
    Marker Score: 1,706
  • Cell Name: L6b glutamatergic cortical neuron (CL4023038)
    Fold Change: 1.1
    Marker Score: 9,472
  • Cell Name: nasal mucosa goblet cell (CL0002480)
    Fold Change: 1.1
    Marker Score: 733
  • Cell Name: corticothalamic-projecting glutamatergic cortical neuron (CL4023013)
    Fold Change: 1.09
    Marker Score: 10,352
  • Cell Name: OFF retinal ganglion cell (CL4023033)
    Fold Change: 1.08
    Marker Score: 453
  • Cell Name: regular atrial cardiac myocyte (CL0002129)
    Fold Change: 1.07
    Marker Score: 3,804
  • Cell Name: neuron (CL0000540)
    Fold Change: 1.03
    Marker Score: 4,210
  • Cell Name: cerebral cortex GABAergic interneuron (CL0010011)
    Fold Change: 1
    Marker Score: 71,725
  • Cell Name: forebrain radial glial cell (CL0013000)
    Fold Change: 1
    Marker Score: 47,949
  • Cell Name: absorptive cell (CL0000212)
    Fold Change: 0.98
    Marker Score: 30,396
  • Cell Name: pvalb GABAergic cortical interneuron (CL4023018)
    Fold Change: 0.96
    Marker Score: 35,385
  • Cell Name: intestinal crypt stem cell of colon (CL0009043)
    Fold Change: 0.94
    Marker Score: 2,400
  • Cell Name: near-projecting glutamatergic cortical neuron (CL4023012)
    Fold Change: 0.94
    Marker Score: 8,868
  • Cell Name: ON retinal ganglion cell (CL4023032)
    Fold Change: 0.94
    Marker Score: 256
  • Cell Name: cardiac muscle myoblast (CL0000513)
    Fold Change: 0.94
    Marker Score: 14,650
  • Cell Name: tuft cell of colon (CL0009041)
    Fold Change: 0.93
    Marker Score: 479
  • Cell Name: choroid plexus epithelial cell (CL0000706)
    Fold Change: 0.93
    Marker Score: 853
  • Cell Name: BEST4+ intestinal epithelial cell, human (CL4030026)
    Fold Change: 0.92
    Marker Score: 435
  • Cell Name: regular ventricular cardiac myocyte (CL0002131)
    Fold Change: 0.92
    Marker Score: 20,465
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: 0.9
    Marker Score: 2,707
  • Cell Name: intestinal epithelial cell (CL0002563)
    Fold Change: 0.89
    Marker Score: 1,443
  • Cell Name: neoplastic cell (CL0001063)
    Fold Change: 0.87
    Marker Score: 5,294
  • Cell Name: basal epithelial cell of tracheobronchial tree (CL0002329)
    Fold Change: 0.87
    Marker Score: 986
  • Cell Name: corneal epithelial cell (CL0000575)
    Fold Change: 0.86
    Marker Score: 955
  • Cell Name: astrocyte of the cerebral cortex (CL0002605)
    Fold Change: 0.86
    Marker Score: 18,403
  • Cell Name: epithelial cell of small intestine (CL0002254)
    Fold Change: 0.86
    Marker Score: 309
  • Cell Name: transit amplifying cell (CL0009010)
    Fold Change: 0.85
    Marker Score: 4,878
  • Cell Name: caudal ganglionic eminence derived GABAergic cortical interneuron (CL4023070)
    Fold Change: 0.83
    Marker Score: 3,220
  • Cell Name: taste receptor cell (CL0000209)
    Fold Change: 0.83
    Marker Score: 715
  • Cell Name: vip GABAergic cortical interneuron (CL4023016)
    Fold Change: 0.8
    Marker Score: 30,525
  • Cell Name: sst GABAergic cortical interneuron (CL4023017)
    Fold Change: 0.8
    Marker Score: 15,914
  • Cell Name: early T lineage precursor (CL0002425)
    Fold Change: 0.77
    Marker Score: 590
  • Cell Name: ciliated cell (CL0000064)
    Fold Change: 0.76
    Marker Score: 2,628
  • Cell Name: small intestine goblet cell (CL1000495)
    Fold Change: 0.76
    Marker Score: 304
  • Cell Name: Leydig cell (CL0000178)
    Fold Change: 0.74
    Marker Score: 799
  • Cell Name: type A enteroendocrine cell (CL0002067)
    Fold Change: 0.74
    Marker Score: 297
  • Cell Name: oogonial cell (CL0000024)
    Fold Change: 0.72
    Marker Score: 1,042
  • Cell Name: chandelier pvalb GABAergic cortical interneuron (CL4023036)
    Fold Change: 0.72
    Marker Score: 3,005
  • Cell Name: ependymal cell (CL0000065)
    Fold Change: 0.72
    Marker Score: 252
  • Cell Name: Cajal-Retzius cell (CL0000695)
    Fold Change: 0.72
    Marker Score: 374
  • Cell Name: sncg GABAergic cortical interneuron (CL4023015)
    Fold Change: 0.72
    Marker Score: 5,517
  • Cell Name: epicardial adipocyte (CL1000309)
    Fold Change: 0.71
    Marker Score: 347
  • Cell Name: kidney loop of Henle thin descending limb epithelial cell (CL1001111)
    Fold Change: 0.71
    Marker Score: 769
  • Cell Name: lamp5 GABAergic cortical interneuron (CL4023011)
    Fold Change: 0.71
    Marker Score: 10,660
  • Cell Name: endocrine cell (CL0000163)
    Fold Change: 0.71
    Marker Score: 368
  • Cell Name: secondary lens fiber (CL0002225)
    Fold Change: 0.7
    Marker Score: 408
  • Cell Name: kidney proximal straight tubule epithelial cell (CL1000839)
    Fold Change: 0.7
    Marker Score: 1,638
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: 0.69
    Marker Score: 2,911
  • Cell Name: cortical cell of adrenal gland (CL0002097)
    Fold Change: 0.68
    Marker Score: 12,117
  • Cell Name: neutrophil progenitor cell (CL0000834)
    Fold Change: 0.68
    Marker Score: 173
  • Cell Name: brush cell (CL0002204)
    Fold Change: 0.67
    Marker Score: 614
  • Cell Name: corneal endothelial cell (CL0000132)
    Fold Change: 0.67
    Marker Score: 388
  • Cell Name: inhibitory interneuron (CL0000498)
    Fold Change: 0.67
    Marker Score: 3,077
  • Cell Name: pancreatic acinar cell (CL0002064)
    Fold Change: 0.64
    Marker Score: 1,352
  • Cell Name: squamous epithelial cell (CL0000076)
    Fold Change: 0.64
    Marker Score: 434
  • Cell Name: mesangial cell (CL0000650)
    Fold Change: 0.63
    Marker Score: 766
  • Cell Name: skeletal muscle fiber (CL0008002)
    Fold Change: 0.63
    Marker Score: 1,585
  • Cell Name: vascular leptomeningeal cell (CL4023051)
    Fold Change: 0.63
    Marker Score: 728
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: 0.63
    Marker Score: 1,383
  • Cell Name: colon epithelial cell (CL0011108)
    Fold Change: 0.63
    Marker Score: 1,969
  • Cell Name: mononuclear cell (CL0000842)
    Fold Change: 0.62
    Marker Score: 201
  • Cell Name: oligodendrocyte (CL0000128)
    Fold Change: 0.62
    Marker Score: 1,492
  • Cell Name: conjunctival epithelial cell (CL1000432)
    Fold Change: 0.62
    Marker Score: 653
  • Cell Name: astrocyte (CL0000127)
    Fold Change: 0.62
    Marker Score: 536
  • Cell Name: Bergmann glial cell (CL0000644)
    Fold Change: 0.61
    Marker Score: 250
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: 0.61
    Marker Score: 820
  • Cell Name: smooth muscle cell of prostate (CL1000487)
    Fold Change: 0.61
    Marker Score: 155
  • Cell Name: non-pigmented ciliary epithelial cell (CL0002304)
    Fold Change: 0.61
    Marker Score: 177
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: 0.61
    Marker Score: 206
  • Cell Name: myoepithelial cell of mammary gland (CL0002324)
    Fold Change: 0.6
    Marker Score: 2,970
  • Cell Name: precursor B cell (CL0000817)
    Fold Change: 0.6
    Marker Score: 399
  • Cell Name: kidney loop of Henle thin ascending limb epithelial cell (CL1001107)
    Fold Change: 0.6
    Marker Score: 610
  • Cell Name: hepatocyte (CL0000182)
    Fold Change: 0.59
    Marker Score: 405
  • Cell Name: epithelial cell of prostate (CL0002231)
    Fold Change: 0.59
    Marker Score: 408
  • Cell Name: lactocyte (CL0002325)
    Fold Change: 0.59
    Marker Score: 9,427
  • Cell Name: erythroblast (CL0000765)
    Fold Change: 0.58
    Marker Score: 363
  • Cell Name: oocyte (CL0000023)
    Fold Change: 0.58
    Marker Score: 143
  • Cell Name: kidney connecting tubule epithelial cell (CL1000768)
    Fold Change: 0.58
    Marker Score: 814
  • Cell Name: primordial germ cell (CL0000670)
    Fold Change: 0.57
    Marker Score: 720
  • Cell Name: Unknown (CL0002371)
    Fold Change: 0.57
    Marker Score: 610
  • Cell Name: podocyte (CL0000653)
    Fold Change: 0.57
    Marker Score: 211
  • Cell Name: cholangiocyte (CL1000488)
    Fold Change: 0.57
    Marker Score: 213
  • Cell Name: fat cell (CL0000136)
    Fold Change: 0.57
    Marker Score: 317
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: 0.57
    Marker Score: 2,368
  • Cell Name: foveolar cell of stomach (CL0002179)
    Fold Change: 0.57
    Marker Score: 3,606
  • Cell Name: renal alpha-intercalated cell (CL0005011)
    Fold Change: 0.56
    Marker Score: 297
  • Cell Name: granulosa cell (CL0000501)
    Fold Change: 0.56
    Marker Score: 5,667
  • Cell Name: male germ cell (CL0000015)
    Fold Change: 0.56
    Marker Score: 162
  • Cell Name: cerebral cortex endothelial cell (CL1001602)
    Fold Change: 0.56
    Marker Score: 336
  • Cell Name: Unknown (CL0000548)
    Fold Change: 0.56
    Marker Score: 409
  • Cell Name: acinar cell (CL0000622)
    Fold Change: 0.56
    Marker Score: 395
  • Cell Name: megakaryocyte-erythroid progenitor cell (CL0000050)
    Fold Change: 0.56
    Marker Score: 234
  • Cell Name: respiratory epithelial cell (CL0002368)
    Fold Change: 0.56
    Marker Score: 308
  • Cell Name: midzonal region hepatocyte (CL0019028)
    Fold Change: 0.56
    Marker Score: 2,409
  • Cell Name: primitive red blood cell (CL0002355)
    Fold Change: 0.55
    Marker Score: 416
  • Cell Name: basal cell of epithelium of trachea (CL1000348)
    Fold Change: 0.55
    Marker Score: 4,116

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Marker Score to the Marker Score Threshold, indicating how much the gene expression has changed compared to a baseline.
Marker Score: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Marker Score to the Marker Score Threshold, indicating how much the gene expression has changed compared to a baseline.
Marker Score: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Marker Score to the Marker Score Threshold, indicating how much the gene expression has changed compared to a baseline.
Marker Score: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Other Information

**Key Characteristics:** SMG5 is a protein-coding gene that belongs to the SMG family of proteins, which are essential for the NMD pathway. The gene is characterized by its ability to bind to specific mRNA sequences and recruit the NMD machinery for degradation. SMG5 is also known to interact with various proteins, including protein phosphatase 2A and ubiquitin ligases, to regulate the activity of the NMD pathway. The gene's expression is restricted to specific cell types, including germ cells, mural cells, and neurons, suggesting a specialized function in these cell types. **Pathways and Functions:** SMG5 is involved in several key pathways, including: 1. **Nonsense-mediated decay (NMD):** SMG5 plays a central role in the NMD pathway, which recognizes and degrades mRNAs with premature stop codons. This process is essential for maintaining genome stability and preventing the translation of aberrant mRNAs. 2. **Histone deacetylase binding:** SMG5 interacts with histone deacetylases to regulate chromatin structure and gene expression. 3. **Metabolism of RNA:** SMG5 is involved in the regulation of RNA metabolism, including the degradation of defective mRNAs. 4. **Regulation of dephosphorylation:** SMG5 interacts with protein phosphatase 2A to regulate the activity of the NMD pathway. 5. **Telomere maintenance:** SMG5 is involved in the regulation of telomere maintenance, including the regulation of telomerase activity. **Clinical Significance:** Dysregulation of the NMD pathway, including the SMG5 gene, has been implicated in various diseases, including: 1. **Neurodegenerative disorders:** Mutations in the SMG5 gene have been associated with neurodegenerative disorders, such as amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD). 2. **Cancer:** Dysregulation of the NMD pathway, including SMG5, has been implicated in the development and progression of various cancers. 3. **Telomere-related disorders:** SMG5 is involved in the regulation of telomere maintenance, and dysregulation of this process has been implicated in telomere-related disorders, such as premature aging and telomere-related cancers. In conclusion, SMG5 plays a critical role in the regulation of gene expression by targeting mRNAs with premature stop codons for degradation. Its involvement in various pathways, including NMD, histone deacetylation, and telomere maintenance, highlights the importance of this gene in maintaining genome stability and preventing disease. Further research is needed to fully understand the clinical significance of SMG5 and its role in human disease.

Genular Protein ID: 462443411

Symbol: SMG5_HUMAN

Name: N/A

UniProtKB Accession Codes:

Q9UPR3 D3DVB7 Q5QJE7 Q659C7 Q8IXC0 Q8IY09 Q96IJ7

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 1 CDD 1 CTD 1 ChiTaRS 1 DMDM 1 DNASU 1 DisGeNET 1 DisProt 1 EMBL 11 EPD 1 Ensembl 1 EvolutionaryTrace 1 GO 14 Gene3D 2 GeneCards 1 GeneTree 1 GeneWiki 1 Genevisible 1 GenomeRNAi 1 HGNC 2 HOGENOM 1 HPA 1 IDEAL 1 InParanoid 1 IntAct 1 InterPro 5 KEGG 1 MANE-Select 1 MIM 1 MINT 1 MassIVE 1 MaxQB 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PDB 2 PDBsum 1 PRO 1 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 3 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 1 Pumba 1 RNAct 1 Reactome 1 RefSeq 1 SAM 1 SIGNOR 1 SMART 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TreeFam 1 UCSC 1 UniProtKB 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 14636577

Title: Phosphorylation of hUPF1 induces formation of mRNA surveillance complexes containing hSMG-5 and hSMG-7.

PubMed ID: 14636577

DOI: 10.1016/s1097-2765(03)00443-x

PubMed ID: 12699629

Title: Functional conservation of the telomerase protein Est1p in humans.

PubMed ID: 12699629

DOI: 10.1016/s0960-9822(03)00210-0

PubMed ID: 10470851

Title: Prediction of the coding sequences of unidentified human genes. XIV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro.

PubMed ID: 10470851

DOI: 10.1093/dnares/6.3.197

PubMed ID: 12168954

Title: Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones.

PubMed ID: 12168954

DOI: 10.1093/dnares/9.3.99

PubMed ID: 16710414

Title: The DNA sequence and biological annotation of human chromosome 1.

PubMed ID: 16710414

DOI: 10.1038/nature04727

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 17974005

Title: The full-ORF clone resource of the German cDNA consortium.

PubMed ID: 17974005

DOI: 10.1186/1471-2164-8-399

PubMed ID: 15546618

Title: SMG7 acts as a molecular link between mRNA surveillance and mRNA decay.

PubMed ID: 15546618

DOI: 10.1016/j.molcel.2004.10.013

PubMed ID: 19413330

Title: Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach.

PubMed ID: 19413330

DOI: 10.1021/ac9004309

PubMed ID: 23186163

Title: Toward a comprehensive characterization of a human cancer cell phosphoproteome.

PubMed ID: 23186163

DOI: 10.1021/pr300630k

PubMed ID: 17053788

Title: Structures of the PIN domains of SMG6 and SMG5 reveal a nuclease within the mRNA surveillance complex.

PubMed ID: 17053788

DOI: 10.1038/sj.emboj.7601377

Sequence Information:

  • Length: 1016
  • Mass: 113928
  • Checksum: B6F8F9B53CF42195
  • Sequence:
    • MSQGPPTGES SEPEAKVLHT KRLYRAVVEA VHRLDLILCN KTAYQEVFKP ENISLRNKLR 
ELCVKLMFLH PVDYGRKAEE LLWRKVYYEV IQLIKTNKKH IHSRSTLECA YRTHLVAGIG 
FYQHLLLYIQ SHYQLELQCC IDWTHVTDPL IGCKKPVSAS GKEMDWAQMA CHRCLVYLGD 
LSRYQNELAG VDTELLAERF YYQALSVAPQ IGMPFNQLGT LAGSKYYNVE AMYCYLRCIQ 
SEVSFEGAYG NLKRLYDKAA KMYHQLKKCE TRKLSPGKKR CKDIKRLLVN FMYLQSLLQP 
KSSSVDSELT SLCQSVLEDF NLCLFYLPSS PNLSLASEDE EEYESGYAFL PDLLIFQMVI 
ICLMCVHSLE RAGSKQYSAA IAFTLALFSH LVNHVNIRLQ AELEEGENPV PAFQSDGTDE 
PESKEPVEKE EEPDPEPPPV TPQVGEGRKS RKFSRLSCLR RRRHPPKVGD DSDLSEGFES 
DSSHDSARAS EGSDSGSDKS LEGGGTAFDA ETDSEMNSQE SRSDLEDMEE EEGTRSPTLE 
PPRGRSEAPD SLNGPLGPSE ASIASNLQAM STQMFQTKRC FRLAPTFSNL LLQPTTNPHT 
SASHRPCVNG DVDKPSEPAS EEGSESEGSE SSGRSCRNER SIQEKLQVLM AEGLLPAVKV 
FLDWLRTNPD LIIVCAQSSQ SLWNRLSVLL NLLPAAGELQ ESGLALCPEV QDLLEGCELP 
DLPSSLLLPE DMALRNLPPL RAAHRRFNFD TDRPLLSTLE ESVVRICCIR SFGHFIARLQ 
GSILQFNPEV GIFVSIAQSE QESLLQQAQA QFRMAQEEAR RNRLMRDMAQ LRLQLEVSQL 
EGSLQQPKAQ SAMSPYLVPD TQALCHHLPV IRQLATSGRF IVIIPRTVID GLDLLKKEHP 
GARDGIRYLE AEFKKGNRYI RCQKEVGKSF ERHKLKRQDA DAWTLYKILD SCKQLTLAQG 
AGEEDPSGMV TIITGLPLDN PSVLSGPMQA ALQAAAHASV DIKNVLDFYK QWKEIG

Database document:

This is a preview of the gene's schema. Only a few entries are kept for 'singleCellExpressions,' 'mRNAExpressions,' and other large data arrays for visualization purposes. You can zoom in with the mouse wheel for a closer view, and the text will adjust automatically if necessary. For the full schema, download it here.