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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 NDRG1 |
 Gene summary |
| Gene information | Gene symbol | NDRG1 | Gene ID | 10397 |
| Gene name | N-myc downstream regulated 1 | |
| Synonyms | CAP43|CMT4D|DRG-1|DRG1|GC4|HMSNL|NDR1|NMSL|PROXY1|RIT42|RTP|TARG1|TDD5 | |
| Cytomap | 8q24.22 | |
| Type of gene | protein-coding | |
| Description | protein NDRG1N-myc downstream-regulated gene 1 proteindifferentiation-related gene 1 proteinnickel-specific induction protein Cap43protein regulated by oxygen-1reducing agents and tunicamycin-responsive protein | |
| Modification date | 20200328 | |
| 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 |
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Gene structures and expression levels for NDRG1 |
| 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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ENSG00000104419
| 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 |
| STG | UP | ENST00000517331.5 | NDRG1-203:lncRNA:NDRG1 | 4.141909e+01 | 2.539066e+00 | 1.602127e-04 | 1.459449e-02 |
| PG | UP | ENST00000521026.5 | NDRG1-216:retained_intron:NDRG1 | 2.352846e+01 | 4.795609e+00 | 4.265563e-06 | 2.675936e-04 |
| TC | DOWN | ENST00000521026.5 | NDRG1-216:retained_intron:NDRG1 | 2.466837e+03 | -1.184065e+00 | 9.881553e-10 | 1.312034e-07 |
| 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 NDRG1 |
| 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_111417 | chr8 | 133256809:133256863:133258366:133258426:133259168:133259230 | 133258366:133258426 |
| exon_skip_112721 | chr8 | 133284276:133284329:133288260:133288431:133297134:133297252 | 133288260:133288431 |
| exon_skip_191365 | chr8 | 133248715:133248771:133250440:133250543:133254539:133254595 | 133250440:133250543 |
| exon_skip_209577 | chr8 | 133262047:133262167:133264547:133264652:133280232:133280267 | 133264547:133264652 |
| exon_skip_215044 | chr8 | 133264547:133264652:133280232:133280267:133297134:133297237 | 133280232:133280267 |
| exon_skip_215356 | chr8 | 133262060:133262167:133264547:133264652:133280232:133280267 | 133264547:133264652 |
| exon_skip_219121 | chr8 | 133254542:133254595:133255270:133255400:133256777:133256863 | 133255270:133255400 |
| exon_skip_227238 | chr8 | 133264547:133264652:133280232:133280267:133284249:133284325 | 133280232:133280267 |
| exon_skip_267654 | chr8 | 133254539:133254595:133255270:133255400:133256777:133256863 | 133255270:133255400 |
| exon_skip_270635 | chr8 | 133254539:133254595:133255270:133255400:133256777:133256861 | 133255270:133255400 |
| exon_skip_290485 | chr8 | 133264547:133264652:133280232:133280267:133284249:133284329 | 133280232:133280267 |
| exon_skip_45825 | chr8 | 133256840:133256863:133258366:133258426:133259168:133259230 | 133258366:133258426 |
| exon_skip_79086 | chr8 | 133264547:133264652:133280232:133280267:133297134:133297252 | 133280232:133280267 |
| exon_skip_93091 | chr8 | 133280232:133280267:133284249:133284329:133297134:133297237 | 133284249:133284329 |
| Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
| Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
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Open reading frame (ORF) annotation in the exon skipping event for NDRG1 |
| 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 |
| ENST00000323851 | 133258366 | 133258426 | Frame-shift |
| ENST00000414097 | 133258366 | 133258426 | Frame-shift |
| ENST00000323851 | 133264547 | 133264652 | Frame-shift |
| ENST00000414097 | 133264547 | 133264652 | Frame-shift |
| ENST00000323851 | 133280232 | 133280267 | In-frame |
| ENST00000414097 | 133280232 | 133280267 | 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 |
| ENST00000323851 | 133258366 | 133258426 | Frame-shift |
| ENST00000414097 | 133258366 | 133258426 | Frame-shift |
| ENST00000323851 | 133264547 | 133264652 | Frame-shift |
| ENST00000414097 | 133264547 | 133264652 | Frame-shift |
| ENST00000323851 | 133280232 | 133280267 | In-frame |
| ENST00000414097 | 133280232 | 133280267 | 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 |
| ENST00000323851 | 133250440 | 133250543 | Frame-shift |
| ENST00000414097 | 133250440 | 133250543 | Frame-shift |
| ENST00000323851 | 133258366 | 133258426 | Frame-shift |
| ENST00000414097 | 133258366 | 133258426 | Frame-shift |
| ENST00000323851 | 133264547 | 133264652 | Frame-shift |
| ENST00000414097 | 133264547 | 133264652 | Frame-shift |
| ENST00000323851 | 133280232 | 133280267 | In-frame |
| ENST00000414097 | 133280232 | 133280267 | In-frame |
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Infer the effects of exon skipping event on protein functional features for NDRG1 |
p-ENSG00000104419_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 |
| ENST00000323851 | 3031 | 394 | 133280232 | 133280267 | 186 | 220 | 21 | 32 |
| ENST00000414097 | 3772 | 394 | 133280232 | 133280267 | 932 | 966 | 21 | 32 |
| 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 |
| ENST00000323851 | 3031 | 394 | 133280232 | 133280267 | 186 | 220 | 21 | 32 |
| ENST00000414097 | 3772 | 394 | 133280232 | 133280267 | 932 | 966 | 21 | 32 |
| 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 |
| ENST00000323851 | 3031 | 394 | 133280232 | 133280267 | 186 | 220 | 21 | 32 |
| ENST00000414097 | 3772 | 394 | 133280232 | 133280267 | 932 | 966 | 21 | 32 |
| 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 |
| Q92597 | 21 | 32 | 1 | 81 | Alternative sequence | ID=VSP_045037;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 1 | 81 | Alternative sequence | ID=VSP_045037;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 1 | 66 | Alternative sequence | ID=VSP_045038;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 1 | 66 | Alternative sequence | ID=VSP_045038;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 2 | 394 | Chain | ID=PRO_0000159573;Note=Protein NDRG1 |
| Q92597 | 21 | 32 | 2 | 394 | Chain | ID=PRO_0000159573;Note=Protein NDRG1 |
| 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 |
| Q92597 | 21 | 32 | 1 | 81 | Alternative sequence | ID=VSP_045037;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 1 | 81 | Alternative sequence | ID=VSP_045037;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 1 | 66 | Alternative sequence | ID=VSP_045038;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 1 | 66 | Alternative sequence | ID=VSP_045038;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 2 | 394 | Chain | ID=PRO_0000159573;Note=Protein NDRG1 |
| Q92597 | 21 | 32 | 2 | 394 | Chain | ID=PRO_0000159573;Note=Protein NDRG1 |
| 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 |
| Q92597 | 21 | 32 | 1 | 81 | Alternative sequence | ID=VSP_045037;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 1 | 81 | Alternative sequence | ID=VSP_045037;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 1 | 66 | Alternative sequence | ID=VSP_045038;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 1 | 66 | Alternative sequence | ID=VSP_045038;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q92597 | 21 | 32 | 2 | 394 | Chain | ID=PRO_0000159573;Note=Protein NDRG1 |
| Q92597 | 21 | 32 | 2 | 394 | Chain | ID=PRO_0000159573;Note=Protein NDRG1 |
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3'-UTR located exon skipping events that lost miRNA binding sites in NDRG1 |
| 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 NDRG1 |
| - 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 NDRG1 |
| 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 NDRG1 |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
| HCC | exon_skip_215044 | rs9297867 | chr8:133320172 | 7.966839e-04 | 4.894071e-02 |
| PCC | exon_skip_215044 | rs7007081 | chr8:133378425 | 6.928323e-05 | 1.310585e-02 |
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Correlation with RNA binding proteins (RBPs) for NDRG1 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for NDRG1 |
| 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 NDRG1 |
| 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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