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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 CUX1 |
 Gene summary |
| Gene information | Gene symbol | CUX1 | Gene ID | 1523 |
| Gene name | cut like homeobox 1 | |
| Synonyms | CASP|CDP|CDP/Cut|CDP1|COY1|CUTL1|CUX|Clox|Cux/CDP|GDDI|GOLIM6|Nbla10317|p100|p110|p200|p75 | |
| Cytomap | 7q22.1 | |
| Type of gene | protein-coding | |
| Description | protein CASPHomeobox protein cut-like 1CCAAT displacement proteinCUX1 gene Alternatively Spliced Productcut homologgolgi integral membrane protein 6homeobox protein cux-1putative protein product of Nbla10317 | |
| Modification date | 20200320 | |
| UniProtAcc | ||
| Context | - 22622826(Characterization of amyloid-β Precursor Protein Intracellular Domain-Associated Transcriptional Complexes in SH-SY5Y Neurocytes) |
| 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 CUX1 |
| 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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ENSG00000257923
| 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. |
 |
| Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
| PG | UP | ENST00000465461.7 | CUX1-207:protein_coding:CUX1 | 4.645962e+00 | 1.192339e+00 | 1.918035e-04 | 4.421785e-03 |
| CB | DOWN | ENST00000487284.2 | CUX1-209:retained_intron:CUX1 | 3.686845e+02 | -1.880233e+00 | 1.159773e-08 | 3.405896e-07 |
| CB | UP | ENST00000549414.6 | CUX1-213:protein_coding:CUX1 | 5.704759e+01 | 1.031810e+00 | 4.821268e-08 | 1.143340e-06 |
| CB | DOWN | ENST00000425244.6 | CUX1-205:protein_coding:CUX1 | 1.881059e+01 | -1.089430e+00 | 1.050618e-02 | 3.620318e-02 |
| TC | DOWN | ENST00000487284.2 | CUX1-209:retained_intron:CUX1 | 1.472384e+02 | -1.214583e+00 | 1.046396e-04 | 1.672338e-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 CUX1 |
| Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
 |
| All exon skipping events in AD cohorts. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
| exon_skip_113299 | chr7 | 102178475:102178657:102189813:102189871:102193842:102193890 | 102189813:102189871 |
| exon_skip_142579 | chr7 | 102115207:102115273:102158560:102158608:102170446:102170550 | 102158560:102158608 |
| exon_skip_176145 | chr7 | 102275256:102275359:102277949:102278065:102280037:102280120 | 102277949:102278065 |
| exon_skip_178799 | chr7 | 102097478:102097501:102104336:102104459:102111698:102111726 | 102104336:102104459 |
| exon_skip_183954 | chr7 | 102196940:102197305:102198802:102198867:102200071:102200172 | 102198802:102198867 |
| exon_skip_196554 | chr7 | 102104437:102104459:102111698:102111774:102115207:102115273 | 102111698:102111774 |
| exon_skip_207565 | chr7 | 102196940:102197305:102200071:102200172:102201360:102202204 | 102200071:102200172 |
| exon_skip_210120 | chr7 | 102281840:102281920:102282712:102282776:102283021:102283478 | 102282712:102282776 |
| exon_skip_221256 | chr7 | 102280037:102280120:102280804:102280860:102281840:102281920 | 102280804:102280860 |
| exon_skip_236205 | chr7 | 102170446:102170550:102178469:102178657:102189813:102189871 | 102178469:102178657 |
| exon_skip_244251 | chr7 | 102115207:102115273:102158560:102158608:102170446:102170547 | 102158560:102158608 |
| exon_skip_257583 | chr7 | 102170446:102170550:102178475:102178657:102189813:102189871 | 102178475:102178657 |
| exon_skip_262692 | chr7 | 101916115:101916225:102028098:102028145:102070339:102070417 | 102028098:102028145 |
| exon_skip_275980 | chr7 | 102111698:102111774:102115207:102115273:102158560:102158608 | 102115207:102115273 |
| exon_skip_295118 | chr7 | 102275247:102275359:102277949:102278065:102280037:102280120 | 102277949:102278065 |
| exon_skip_34711 | chr7 | 101816008:101816093:101916115:101916225:102028098:102028145 | 101916115:101916225 |
| exon_skip_60801 | chr7 | 102070339:102070417:102097364:102097501:102104336:102104459 | 102097364:102097501 |
| exon_skip_70175 | chr7 | 102189813:102189871:102193842:102193890:102195507:102195603 | 102193842:102193890 |
| exon_skip_73382 | chr7 | 102158560:102158608:102170446:102170550:102178469:102178657 | 102170446:102170550 |
| exon_skip_82570 | chr7 | 101916117:101916225:102028098:102028145:102070339:102070417 | 102028098:102028145 |
| 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 CUX1 |
| 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 |
| ENST00000292538 | 102158560 | 102158608 | Frame-shift |
| ENST00000622516 | 102158560 | 102158608 | Frame-shift |
| ENST00000292535 | 102158560 | 102158608 | Frame-shift |
| ENST00000546411 | 102158560 | 102158608 | Frame-shift |
| ENST00000292538 | 102189813 | 102189871 | Frame-shift |
| ENST00000622516 | 102189813 | 102189871 | Frame-shift |
| ENST00000292535 | 102189813 | 102189871 | Frame-shift |
| ENST00000546411 | 102189813 | 102189871 | Frame-shift |
| ENST00000292538 | 102282712 | 102282776 | Frame-shift |
| ENST00000622516 | 102282712 | 102282776 | Frame-shift |
| ENST00000292538 | 101916115 | 101916225 | In-frame |
| ENST00000622516 | 101916115 | 101916225 | In-frame |
| ENST00000292538 | 102028098 | 102028145 | In-frame |
| ENST00000622516 | 102028098 | 102028145 | In-frame |
| ENST00000292535 | 102028098 | 102028145 | In-frame |
| ENST00000546411 | 102028098 | 102028145 | In-frame |
| ENST00000292538 | 102097364 | 102097501 | In-frame |
| ENST00000622516 | 102097364 | 102097501 | In-frame |
| ENST00000292535 | 102097364 | 102097501 | In-frame |
| ENST00000546411 | 102097364 | 102097501 | In-frame |
| ENST00000292538 | 102170446 | 102170550 | In-frame |
| ENST00000622516 | 102170446 | 102170550 | In-frame |
| ENST00000292535 | 102170446 | 102170550 | In-frame |
| ENST00000546411 | 102170446 | 102170550 | In-frame |
| ENST00000292538 | 102178469 | 102178657 | In-frame |
| ENST00000622516 | 102178469 | 102178657 | In-frame |
| ENST00000292535 | 102178469 | 102178657 | In-frame |
| ENST00000546411 | 102178469 | 102178657 | In-frame |
| ENST00000292535 | 102198802 | 102198867 | In-frame |
| ENST00000546411 | 102198802 | 102198867 | In-frame |
| ENST00000292538 | 102277949 | 102278065 | In-frame |
| ENST00000622516 | 102277949 | 102278065 | 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 |
| ENST00000292538 | 102158560 | 102158608 | Frame-shift |
| ENST00000622516 | 102158560 | 102158608 | Frame-shift |
| ENST00000292535 | 102158560 | 102158608 | Frame-shift |
| ENST00000546411 | 102158560 | 102158608 | Frame-shift |
| ENST00000292538 | 102028098 | 102028145 | In-frame |
| ENST00000622516 | 102028098 | 102028145 | In-frame |
| ENST00000292535 | 102028098 | 102028145 | In-frame |
| ENST00000546411 | 102028098 | 102028145 | In-frame |
| ENST00000292538 | 102097364 | 102097501 | In-frame |
| ENST00000622516 | 102097364 | 102097501 | In-frame |
| ENST00000292535 | 102097364 | 102097501 | In-frame |
| ENST00000546411 | 102097364 | 102097501 | In-frame |
| ENST00000292535 | 102198802 | 102198867 | In-frame |
| ENST00000546411 | 102198802 | 102198867 | 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 |
| ENST00000292538 | 102104336 | 102104459 | Frame-shift |
| ENST00000622516 | 102104336 | 102104459 | Frame-shift |
| ENST00000292535 | 102104336 | 102104459 | Frame-shift |
| ENST00000546411 | 102104336 | 102104459 | Frame-shift |
| ENST00000292538 | 102111698 | 102111774 | Frame-shift |
| ENST00000622516 | 102111698 | 102111774 | Frame-shift |
| ENST00000292535 | 102111698 | 102111774 | Frame-shift |
| ENST00000546411 | 102111698 | 102111774 | Frame-shift |
| ENST00000292538 | 102115207 | 102115273 | Frame-shift |
| ENST00000622516 | 102115207 | 102115273 | Frame-shift |
| ENST00000292535 | 102115207 | 102115273 | Frame-shift |
| ENST00000546411 | 102115207 | 102115273 | Frame-shift |
| ENST00000292538 | 102158560 | 102158608 | Frame-shift |
| ENST00000622516 | 102158560 | 102158608 | Frame-shift |
| ENST00000292535 | 102158560 | 102158608 | Frame-shift |
| ENST00000546411 | 102158560 | 102158608 | Frame-shift |
| ENST00000292538 | 102189813 | 102189871 | Frame-shift |
| ENST00000622516 | 102189813 | 102189871 | Frame-shift |
| ENST00000292535 | 102189813 | 102189871 | Frame-shift |
| ENST00000546411 | 102189813 | 102189871 | Frame-shift |
| ENST00000292538 | 102193842 | 102193890 | Frame-shift |
| ENST00000622516 | 102193842 | 102193890 | Frame-shift |
| ENST00000292535 | 102193842 | 102193890 | Frame-shift |
| ENST00000546411 | 102193842 | 102193890 | Frame-shift |
| ENST00000292538 | 102282712 | 102282776 | Frame-shift |
| ENST00000622516 | 102282712 | 102282776 | Frame-shift |
| ENST00000292538 | 101916115 | 101916225 | In-frame |
| ENST00000622516 | 101916115 | 101916225 | In-frame |
| ENST00000292538 | 102028098 | 102028145 | In-frame |
| ENST00000622516 | 102028098 | 102028145 | In-frame |
| ENST00000292535 | 102028098 | 102028145 | In-frame |
| ENST00000546411 | 102028098 | 102028145 | In-frame |
| ENST00000292538 | 102097364 | 102097501 | In-frame |
| ENST00000622516 | 102097364 | 102097501 | In-frame |
| ENST00000292535 | 102097364 | 102097501 | In-frame |
| ENST00000546411 | 102097364 | 102097501 | In-frame |
| ENST00000292538 | 102170446 | 102170550 | In-frame |
| ENST00000622516 | 102170446 | 102170550 | In-frame |
| ENST00000292535 | 102170446 | 102170550 | In-frame |
| ENST00000546411 | 102170446 | 102170550 | In-frame |
| ENST00000292538 | 102178469 | 102178657 | In-frame |
| ENST00000622516 | 102178469 | 102178657 | In-frame |
| ENST00000292535 | 102178469 | 102178657 | In-frame |
| ENST00000546411 | 102178469 | 102178657 | In-frame |
| ENST00000292535 | 102198802 | 102198867 | In-frame |
| ENST00000546411 | 102198802 | 102198867 | In-frame |
| ENST00000292538 | 102277949 | 102278065 | In-frame |
| ENST00000622516 | 102277949 | 102278065 | In-frame |
| ENST00000292538 | 102280804 | 102280860 | In-frame |
| ENST00000622516 | 102280804 | 102280860 | In-frame |
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Infer the effects of exon skipping event on protein functional features for CUX1 |
p-ENSG00000257923_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 |
| ENST00000292535 | 13764 | 1505 | 102028098 | 102028145 | 181 | 227 | 47 | 63 |
| ENST00000546411 | 13732 | 1505 | 102028098 | 102028145 | 149 | 195 | 47 | 63 |
| ENST00000292535 | 13764 | 1505 | 102097364 | 102097501 | 308 | 444 | 90 | 135 |
| ENST00000546411 | 13732 | 1505 | 102097364 | 102097501 | 276 | 412 | 90 | 135 |
| ENST00000292535 | 13764 | 1505 | 102170446 | 102170550 | 763 | 866 | 241 | 276 |
| ENST00000546411 | 13732 | 1505 | 102170446 | 102170550 | 731 | 834 | 241 | 276 |
| ENST00000292535 | 13764 | 1505 | 102178469 | 102178657 | 868 | 1055 | 276 | 339 |
| ENST00000546411 | 13732 | 1505 | 102178469 | 102178657 | 836 | 1023 | 276 | 339 |
| ENST00000292535 | 13764 | 1505 | 102198802 | 102198867 | 1934 | 1998 | 632 | 653 |
| ENST00000546411 | 13732 | 1505 | 102198802 | 102198867 | 1902 | 1966 | 632 | 653 |
| 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 |
| ENST00000292535 | 13764 | 1505 | 102028098 | 102028145 | 181 | 227 | 47 | 63 |
| ENST00000546411 | 13732 | 1505 | 102028098 | 102028145 | 149 | 195 | 47 | 63 |
| ENST00000292535 | 13764 | 1505 | 102097364 | 102097501 | 308 | 444 | 90 | 135 |
| ENST00000546411 | 13732 | 1505 | 102097364 | 102097501 | 276 | 412 | 90 | 135 |
| ENST00000292535 | 13764 | 1505 | 102198802 | 102198867 | 1934 | 1998 | 632 | 653 |
| ENST00000546411 | 13732 | 1505 | 102198802 | 102198867 | 1902 | 1966 | 632 | 653 |
| 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 |
| ENST00000292535 | 13764 | 1505 | 102028098 | 102028145 | 181 | 227 | 47 | 63 |
| ENST00000546411 | 13732 | 1505 | 102028098 | 102028145 | 149 | 195 | 47 | 63 |
| ENST00000292535 | 13764 | 1505 | 102097364 | 102097501 | 308 | 444 | 90 | 135 |
| ENST00000546411 | 13732 | 1505 | 102097364 | 102097501 | 276 | 412 | 90 | 135 |
| ENST00000292535 | 13764 | 1505 | 102170446 | 102170550 | 763 | 866 | 241 | 276 |
| ENST00000546411 | 13732 | 1505 | 102170446 | 102170550 | 731 | 834 | 241 | 276 |
| ENST00000292535 | 13764 | 1505 | 102178469 | 102178657 | 868 | 1055 | 276 | 339 |
| ENST00000546411 | 13732 | 1505 | 102178469 | 102178657 | 836 | 1023 | 276 | 339 |
| ENST00000292535 | 13764 | 1505 | 102198802 | 102198867 | 1934 | 1998 | 632 | 653 |
| ENST00000546411 | 13732 | 1505 | 102198802 | 102198867 | 1902 | 1966 | 632 | 653 |
| 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 |
| Q13948 | 47 | 63 | 22 | 58 | Alternative sequence | ID=VSP_045593;Note=In isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 22 | 58 | Alternative sequence | ID=VSP_045593;Note=In isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 58 | 73 | Alternative sequence | ID=VSP_045927;Note=In isoform 10. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 58 | 73 | Alternative sequence | ID=VSP_045927;Note=In isoform 10. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 47 | 63 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 47 | 63 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 47 | 63 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 90 | 135 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 90 | 135 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 241 | 276 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 241 | 276 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 241 | 276 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 241 | 276 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 241 | 276 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 241 | 276 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 276 | 339 | 288 | 289 | Alternative sequence | ID=VSP_040094;Note=In isoform 8 and isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 276 | 339 | 288 | 289 | Alternative sequence | ID=VSP_040094;Note=In isoform 8 and isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 276 | 339 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 276 | 339 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 276 | 339 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 276 | 339 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 276 | 339 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 276 | 339 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 632 | 653 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 632 | 653 | 641 | 678 | Topological domain | Note=Lumenal;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 641 | 678 | Topological domain | Note=Lumenal;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 620 | 640 | Transmembrane | Note=Helical%3B Anchor for type IV membrane protein;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 620 | 640 | Transmembrane | Note=Helical%3B Anchor for type IV membrane protein;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 |
| Q13948 | 47 | 63 | 22 | 58 | Alternative sequence | ID=VSP_045593;Note=In isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 22 | 58 | Alternative sequence | ID=VSP_045593;Note=In isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 58 | 73 | Alternative sequence | ID=VSP_045927;Note=In isoform 10. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 58 | 73 | Alternative sequence | ID=VSP_045927;Note=In isoform 10. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 47 | 63 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 47 | 63 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 47 | 63 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 90 | 135 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 90 | 135 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 632 | 653 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 632 | 653 | 641 | 678 | Topological domain | Note=Lumenal;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 641 | 678 | Topological domain | Note=Lumenal;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 620 | 640 | Transmembrane | Note=Helical%3B Anchor for type IV membrane protein;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 620 | 640 | Transmembrane | Note=Helical%3B Anchor for type IV membrane protein;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| 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 |
| Q13948 | 47 | 63 | 22 | 58 | Alternative sequence | ID=VSP_045593;Note=In isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 22 | 58 | Alternative sequence | ID=VSP_045593;Note=In isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 58 | 73 | Alternative sequence | ID=VSP_045927;Note=In isoform 10. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 58 | 73 | Alternative sequence | ID=VSP_045927;Note=In isoform 10. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 47 | 63 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 47 | 63 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 47 | 63 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 47 | 63 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 90 | 135 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 90 | 135 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 90 | 135 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 241 | 276 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 241 | 276 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 241 | 276 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 241 | 276 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 241 | 276 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 241 | 276 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 276 | 339 | 288 | 289 | Alternative sequence | ID=VSP_040094;Note=In isoform 8 and isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 276 | 339 | 288 | 289 | Alternative sequence | ID=VSP_040094;Note=In isoform 8 and isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
| Q13948 | 276 | 339 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 276 | 339 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 276 | 339 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 276 | 339 | 67 | 450 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 276 | 339 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 276 | 339 | 1 | 619 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 632 | 653 | 1 | 678 | Chain | ID=PRO_0000071790;Note=Protein CASP |
| Q13948 | 632 | 653 | 641 | 678 | Topological domain | Note=Lumenal;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 641 | 678 | Topological domain | Note=Lumenal;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 620 | 640 | Transmembrane | Note=Helical%3B Anchor for type IV membrane protein;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13948 | 632 | 653 | 620 | 640 | Transmembrane | Note=Helical%3B Anchor for type IV membrane protein;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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3'-UTR located exon skipping events that lost miRNA binding sites in CUX1 |
| 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 CUX1 |
| - 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 CUX1 |
| 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 CUX1 |
| 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 CUX1 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | RBM6 | exon_skip_183954 | -4.132652e-01 | 9.075751e-08 |
| CB | RBM3 | exon_skip_183954 | 4.099806e-01 | 1.172958e-07 |
| CB | TRA2A | exon_skip_183954 | -4.650252e-01 | 1.087502e-09 |
| CB | NUP42 | exon_skip_183954 | 5.797393e-01 | 2.699310e-15 |
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RelatedDrugs for CUX1 |
| 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 CUX1 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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