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| Open reading frame (ORF) annotation in the exon skipping event |
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| 3'-UTR located exon skipping events lost miRNA binding sites |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
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Gene summary for GOLGA4 |
 Gene summary |
| Gene information | Gene symbol | GOLGA4 | Gene ID | 2803 |
| Gene name | golgin A4 | |
| Synonyms | CRPF46|GCP2|GOLG|MU-RMS-40.18|p230 | |
| Cytomap | 3p22.2 | |
| Type of gene | protein-coding | |
| Description | golgin subfamily A member 4256 kDa golgin72.1 proteincentrosome-related protein F46golgi autoantigen, golgin subfamily a, 4golgin-240golgin-245protein 72.1trans-Golgi p230 | |
| Modification date | 20200313 | |
| UniProtAcc | ||
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| GOLGA4 | GO:0043001 | Golgi to plasma membrane protein transport | 15265687 |
| GOLGA4 | GO:0045773 | positive regulation of axon extension | 22705394 |
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Gene structures and expression levels for GOLGA4 |
| Skipped exons in the ROSMAP, MSBB, and Mayo based on Ensembl gene isoform structure. * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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ENSG00000144674
| Differentially expressed gene analysis across multiple brain tissues between AD and control. |
| Tissue type | DEG direction | Base mean exp. | log2FC(AD/control) | P-value | Adj. p-value |
| Differentially expressed isoform analysis across multiple brain tissues between AD and control. |
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| Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
| DLPFC | UP | ENST00000617480.4 | GOLGA4-212:protein_coding:GOLGA4 | 3.176457e+00 | 2.082091e+00 | 1.401012e-03 | 4.197665e-02 |
| CB | UP | ENST00000419177.3 | GOLGA4-203:lncRNA:GOLGA4 | 1.284440e+01 | 1.791796e+00 | 7.224409e-15 | 2.699760e-12 |
| CB | UP | ENST00000356847.8 | GOLGA4-201:protein_coding:GOLGA4 | 4.563872e+02 | 9.796441e-01 | 1.306552e-11 | 1.219094e-09 |
| CB | UP | ENST00000431105.1 | GOLGA4-205:protein_coding:GOLGA4 | 5.745667e+00 | 1.022606e+00 | 6.539368e-07 | 1.044933e-05 |
| CB | UP | ENST00000617480.4 | GOLGA4-212:protein_coding:GOLGA4 | 3.323191e+00 | 1.592907e+00 | 9.776720e-04 | 5.066686e-03 |
| CB | DOWN | ENST00000444882.5 | GOLGA4-208:protein_coding:GOLGA4 | 1.885888e+02 | -1.692081e+00 | 4.621115e-03 | 1.845117e-02 |
| TC | UP | ENST00000419177.3 | GOLGA4-203:lncRNA:GOLGA4 | 1.029693e+01 | 8.230525e-01 | 9.800655e-05 | 1.587166e-03 |
| Landscape of isoform expressions across multiple brain tissues between AD and control. |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for GOLGA4 |
| Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
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| All exon skipping events in AD cohorts. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
| exon_skip_111658 | chr3 | 37302185:37302332:37313422:37313519:37315420:37315506 | 37313422:37313519 |
| exon_skip_122908 | chr3 | 37302201:37302332:37313422:37313519:37315420:37315506 | 37313422:37313519 |
| exon_skip_153279 | chr3 | 37302185:37302332:37315420:37315598:37319063:37319194 | 37315420:37315598 |
| exon_skip_157423 | chr3 | 37282183:37282272:37286014:37286061:37289235:37289289 | 37286014:37286061 |
| exon_skip_187506 | chr3 | 37302185:37302332:37313422:37313519:37315420:37315580 | 37313422:37313519 |
| exon_skip_213346 | chr3 | 37251395:37251484:37266842:37266940:37273536:37273601 | 37266842:37266940 |
| exon_skip_232128 | chr3 | 37243424:37243622:37251395:37251484:37273536:37273601 | 37251395:37251484 |
| exon_skip_243074 | chr3 | 37335053:37335166:37337143:37337163:37337666:37337734 | 37337143:37337163 |
| exon_skip_245612 | chr3 | 37286014:37286061:37287527:37287612:37289235:37289291 | 37287527:37287612 |
| exon_skip_27258 | chr3 | 37337143:37337163:37337666:37337734:37340124:37340199 | 37337666:37337734 |
| exon_skip_280732 | chr3 | 37243191:37243622:37245303:37245421:37249701:37250607 | 37245303:37245421 |
| exon_skip_288441 | chr3 | 37251395:37251484:37273536:37273601:37281958:37282272 | 37273536:37273601 |
| exon_skip_289295 | chr3 | 37298833:37299020:37299288:37299371:37302185:37302332 | 37299288:37299371 |
| exon_skip_295992 | chr3 | 37282183:37282272:37289235:37289289:37294979:37295077 | 37289235:37289289 |
| exon_skip_39088 | chr3 | 37355101:37355187:37361243:37361305:37366080:37366745 | 37361243:37361305 |
| exon_skip_67244 | chr3 | 37328416:37328537:37328963:37329093:37335053:37335166 | 37328963:37329093 |
| exon_skip_69238 | chr3 | 37282183:37282272:37289235:37289291:37294979:37295077 | 37289235:37289291 |
| exon_skip_77278 | chr3 | 37328963:37329093:37335053:37335166:37337666:37337734 | 37335053:37335166 |
| exon_skip_86463 | chr3 | 37243191:37243622:37245303:37245421:37249701:37249742 | 37245303:37245421 |
| exon_skip_90263 | chr3 | 37328420:37328537:37328963:37329093:37335053:37335166 | 37328963:37329093 |
| Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
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| Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
| exon_skip_39088 | MSBB_PG | 2.401460e-01 | 4.157692e-01 | -1.756232e-01 | 1.253328e-05 |
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Open reading frame (ORF) annotation in the exon skipping event for GOLGA4 |
| Open reading frame (ORF) of individual exon skipping events in ROSMAP based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000361924 | 37361243 | 37361305 | 3UTR-3CDS |
| ENST00000361924 | 37328963 | 37329093 | Frame-shift |
| ENST00000361924 | 37286014 | 37286061 | In-frame |
| ENST00000361924 | 37299288 | 37299371 | In-frame |
| ENST00000361924 | 37337143 | 37337163 | In-frame |
| ENST00000361924 | 37337666 | 37337734 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in MSBB based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000361924 | 37361243 | 37361305 | 3UTR-3CDS |
| ENST00000361924 | 37315420 | 37315598 | Frame-shift |
| ENST00000361924 | 37328963 | 37329093 | Frame-shift |
| ENST00000361924 | 37286014 | 37286061 | In-frame |
| ENST00000361924 | 37299288 | 37299371 | In-frame |
| ENST00000361924 | 37337143 | 37337163 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in Mayo based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000361924 | 37361243 | 37361305 | 3UTR-3CDS |
| ENST00000361924 | 37315420 | 37315598 | Frame-shift |
| ENST00000361924 | 37328963 | 37329093 | Frame-shift |
| ENST00000361924 | 37286014 | 37286061 | In-frame |
| ENST00000361924 | 37299288 | 37299371 | In-frame |
| ENST00000361924 | 37337143 | 37337163 | In-frame |
| ENST00000361924 | 37337666 | 37337734 | In-frame |
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Infer the effects of exon skipping event on protein functional features for GOLGA4 |
p-ENSG00000144674_img4.png |
| Loci of skipped exons in ROSMAP across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000361924 | 7789 | 2230 | 37286014 | 37286061 | 853 | 899 | 159 | 175 |
| ENST00000361924 | 7789 | 2230 | 37299288 | 37299371 | 1378 | 1460 | 334 | 362 |
| ENST00000361924 | 7789 | 2230 | 37337666 | 37337734 | 6703 | 6770 | 2109 | 2132 |
| Loci of skipped exons in MSBB across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000361924 | 7789 | 2230 | 37286014 | 37286061 | 853 | 899 | 159 | 175 |
| ENST00000361924 | 7789 | 2230 | 37299288 | 37299371 | 1378 | 1460 | 334 | 362 |
| Loci of skipped exons in Mayo across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000361924 | 7789 | 2230 | 37286014 | 37286061 | 853 | 899 | 159 | 175 |
| ENST00000361924 | 7789 | 2230 | 37299288 | 37299371 | 1378 | 1460 | 334 | 362 |
| ENST00000361924 | 7789 | 2230 | 37337666 | 37337734 | 6703 | 6770 | 2109 | 2132 |
| Lost protein functional features of individual exon skipping events in ROSMAP. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| Q13439 | 159 | 175 | 1 | 2230 | Chain | ID=PRO_0000190059;Note=Golgin subfamily A member 4 |
| Q13439 | 159 | 175 | 133 | 2185 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13439 | 159 | 175 | 133 | 203 | Region | Note=Interaction with MACF1;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15265687;Dbxref=PMID:15265687 |
| Q13439 | 334 | 362 | 1 | 2230 | Chain | ID=PRO_0000190059;Note=Golgin subfamily A member 4 |
| Q13439 | 334 | 362 | 133 | 2185 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13439 | 334 | 362 | 252 | 2096 | Compositional bias | Note=Glu-rich |
| Q13439 | 2109 | 2132 | 2103 | 2109 | Alternative sequence | ID=VSP_004274;Note=In isoform 3 and isoform 5. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|Ref.4 |
| Q13439 | 2109 | 2132 | 1 | 2230 | Chain | ID=PRO_0000190059;Note=Golgin subfamily A member 4 |
| Q13439 | 2109 | 2132 | 133 | 2185 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Lost protein functional features of individual exon skipping events in MSBB. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| Q13439 | 159 | 175 | 1 | 2230 | Chain | ID=PRO_0000190059;Note=Golgin subfamily A member 4 |
| Q13439 | 159 | 175 | 133 | 2185 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13439 | 159 | 175 | 133 | 203 | Region | Note=Interaction with MACF1;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15265687;Dbxref=PMID:15265687 |
| Q13439 | 334 | 362 | 1 | 2230 | Chain | ID=PRO_0000190059;Note=Golgin subfamily A member 4 |
| Q13439 | 334 | 362 | 133 | 2185 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13439 | 334 | 362 | 252 | 2096 | Compositional bias | Note=Glu-rich |
| Lost protein functional features of individual exon skipping events in Mayo. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| Q13439 | 159 | 175 | 1 | 2230 | Chain | ID=PRO_0000190059;Note=Golgin subfamily A member 4 |
| Q13439 | 159 | 175 | 133 | 2185 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13439 | 159 | 175 | 133 | 203 | Region | Note=Interaction with MACF1;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15265687;Dbxref=PMID:15265687 |
| Q13439 | 334 | 362 | 1 | 2230 | Chain | ID=PRO_0000190059;Note=Golgin subfamily A member 4 |
| Q13439 | 334 | 362 | 133 | 2185 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13439 | 334 | 362 | 252 | 2096 | Compositional bias | Note=Glu-rich |
| Q13439 | 2109 | 2132 | 2103 | 2109 | Alternative sequence | ID=VSP_004274;Note=In isoform 3 and isoform 5. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|Ref.4 |
| Q13439 | 2109 | 2132 | 1 | 2230 | Chain | ID=PRO_0000190059;Note=Golgin subfamily A member 4 |
| Q13439 | 2109 | 2132 | 133 | 2185 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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3'-UTR located exon skipping events that lost miRNA binding sites in GOLGA4 |
| 3'-UTR exon skipping evnets lost miRNA binding. |
| Tissue type | ENST | Exon skip start | Exon skip end | microRNA | Binding site by TargetScan | Binding type by TargetScan | Bdinding site by miRanda | Score of miRanda | Energy by miRanda |
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SNVs in the skipped exons for GOLGA4 |
| - Differential PSIs between mutated versus non-mutated samples. |
| - Depth of Coverage in the skipped exon of the mutated samples. |
| - Sashimi plot in the skipped exon of the mutated samples. |
| - Non-synonymous mutations located in the skipped exons. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| - Non-synonymous mutations located in the skipped exons in CCLE. |
| Sample | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
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AD stage-associated exon skippint events for GOLGA4 |
| Associated exon skipping events with Braak staging or Clinical Dementia Rating (CDR). |
| AD stage info | Cohort | Tissue | SE id | Coefficient | P-value | Chromosome | Strand | E1 start | E1 end | Skipped start | Skipped end | E2 start | E2 end |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for GOLGA4 |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for GOLGA4 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | NUP42 | exon_skip_288441 | 4.270919e-01 | 1.146267e-06 |
| CB | TRA2A | exon_skip_157423 | -4.705065e-01 | 4.466273e-09 |
| CB | NUP42 | exon_skip_157423 | 5.370728e-01 | 7.872764e-12 |
| CB | TARDBP | exon_skip_289295 | -4.022069e-01 | 4.422939e-07 |
| CB | TRA2A | exon_skip_289295 | -5.373250e-01 | 2.271401e-12 |
| CB | UNK | exon_skip_39088 | 5.196555e-01 | 2.235519e-12 |
| CB | RALYL | exon_skip_39088 | 4.078268e-01 | 9.514873e-08 |
| DLPFC | SF1 | exon_skip_39088 | 4.371270e-01 | 2.157739e-17 |
| DLPFC | KHSRP | exon_skip_39088 | 5.128287e-01 | 2.469264e-24 |
| DLPFC | HNRNPA0 | exon_skip_39088 | 5.041930e-01 | 1.881006e-23 |
| DLPFC | HNRNPD | exon_skip_39088 | 4.787662e-01 | 5.370829e-21 |
| DLPFC | RALYL | exon_skip_39088 | 5.963530e-01 | 2.572245e-34 |
| FL | MSI1 | exon_skip_213346 | 4.322000e-01 | 8.994996e-10 |
| FL | RALYL | exon_skip_213346 | -4.367399e-01 | 5.721583e-10 |
| FL | MSI1 | exon_skip_39088 | -5.125402e-01 | 2.542100e-14 |
| FL | MBNL1 | exon_skip_39088 | 4.384498e-01 | 1.800934e-10 |
| FL | HNRNPA0 | exon_skip_39088 | 5.623919e-01 | 1.724554e-17 |
| FL | RALYL | exon_skip_39088 | 6.275914e-01 | 1.565835e-22 |
| HCC | DAZAP1 | exon_skip_213346 | 4.397524e-01 | 1.261564e-13 |
| HCC | MSI1 | exon_skip_213346 | 6.482141e-01 | 3.843848e-32 |
| HCC | PTBP1 | exon_skip_213346 | 6.296971e-01 | 6.618131e-30 |
| HCC | DAZAP1 | exon_skip_39088 | -4.384419e-01 | 2.979110e-14 |
| HCC | MSI1 | exon_skip_39088 | -5.974630e-01 | 8.355630e-28 |
| HCC | RBM6 | exon_skip_39088 | -5.130036e-01 | 9.968733e-20 |
| HCC | UNK | exon_skip_39088 | -4.218702e-01 | 3.309592e-13 |
| IFG | IGF2BP2 | exon_skip_213346 | 6.381486e-01 | 3.417615e-04 |
| IFG | RBM3 | exon_skip_157423 | 4.212267e-01 | 2.559300e-02 |
| PCC | MSI1 | exon_skip_213346 | 5.821094e-01 | 1.563241e-18 |
| PCC | RALYL | exon_skip_213346 | -4.872590e-01 | 1.159315e-12 |
| PCC | PTBP1 | exon_skip_213346 | 5.951622e-01 | 1.697236e-19 |
| PCC | MSI1 | exon_skip_39088 | -4.050821e-01 | 6.758616e-10 |
| PCC | RALYL | exon_skip_39088 | 5.852507e-01 | 3.721420e-21 |
| PG | MBNL1 | exon_skip_213346 | -4.120236e-01 | 2.872234e-08 |
| PG | HNRNPK | exon_skip_213346 | -4.080857e-01 | 4.000160e-08 |
| PG | RBM24 | exon_skip_213346 | -5.587157e-01 | 3.546555e-15 |
| PG | ENOX1 | exon_skip_213346 | -4.288747e-01 | 6.627002e-09 |
| PG | RALYL | exon_skip_213346 | -6.345520e-01 | 2.580059e-20 |
| PG | HNRNPL | exon_skip_213346 | -4.582029e-01 | 4.229271e-10 |
| PG | MSI1 | exon_skip_39088 | -4.984330e-01 | 2.910611e-13 |
| PG | HNRNPA0 | exon_skip_39088 | 4.526881e-01 | 6.154806e-11 |
| PG | RALYL | exon_skip_39088 | 6.683629e-01 | 8.012867e-26 |
| STG | RALYL | exon_skip_213346 | -4.204329e-01 | 1.032361e-04 |
| STG | MBNL1 | exon_skip_39088 | 4.423401e-01 | 2.249122e-05 |
| STG | HNRNPA0 | exon_skip_39088 | 5.765246e-01 | 7.735660e-09 |
| STG | RALYL | exon_skip_39088 | 7.020827e-01 | 7.083786e-14 |
| TC | RBM6 | exon_skip_39088 | -4.037814e-01 | 1.192613e-07 |
| TC | HNRNPA0 | exon_skip_39088 | 6.701570e-01 | 3.285360e-22 |
| TC | HNRNPD | exon_skip_39088 | 5.459931e-01 | 8.201490e-14 |
| TC | RALYL | exon_skip_39088 | 8.994163e-01 | 1.142841e-58 |
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RelatedDrugs for GOLGA4 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for GOLGA4 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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