|
||||||
|
 | |
| |
| |
| Open reading frame (ORF) annotation in the exon skipping event |
| |
| 3'-UTR located exon skipping events lost miRNA binding sites |
| |
| |
| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| |
| |
|
Gene summary for LIMCH1 |
 Gene summary |
| Gene information | Gene symbol | LIMCH1 | Gene ID | 22998 |
| Gene name | LIM and calponin homology domains 1 | |
| Synonyms | LIMCH1A|LMO7B | |
| Cytomap | 4p13 | |
| Type of gene | protein-coding | |
| Description | LIM and calponin homology domains-containing protein 1 | |
| 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 |
Top |
Gene structures and expression levels for LIMCH1 |
| 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. |
 |
ENSG00000064042
| 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 |
| STG | UP | ENST00000508466.1 | LIMCH1-207:protein_coding:LIMCH1 | 1.457819e+01 | 2.340927e+01 | 3.229637e-20 | 5.756127e-17 |
| PG | UP | ENST00000381753.8 | LIMCH1-202:protein_coding:LIMCH1 | 1.386717e+02 | 4.060572e+00 | 2.163914e-05 | 8.867136e-04 |
| PG | UP | ENST00000511424.5 | LIMCH1-212:protein_coding:LIMCH1 | 5.485935e+00 | 5.394113e+00 | 5.313826e-05 | 1.718098e-03 |
| CB | UP | ENST00000511496.5 | LIMCH1-213:protein_coding:LIMCH1 | 5.617230e+00 | 1.822671e+00 | 4.894758e-05 | 4.038788e-04 |
| CB | UP | ENST00000514190.5 | LIMCH1-220:lncRNA:LIMCH1 | 4.510144e+00 | 1.015086e+00 | 1.327132e-03 | 6.552628e-03 |
| CB | UP | ENST00000514096.5 | LIMCH1-219:protein_coding:LIMCH1 | 1.125500e+00 | 1.773891e+00 | 3.087141e-03 | 1.321182e-02 |
| Landscape of isoform expressions across multiple brain tissues between AD and control. |
 |
Top |
Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for LIMCH1 |
| 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_112175 | chr4 | 41666561:41666666:41670718:41670792:41671554:41671594 | 41670718:41670792 |
| exon_skip_166690 | chr4 | 41646485:41646893:41650393:41650608:41661420:41661510 | 41650393:41650608 |
| exon_skip_172906 | chr4 | 41598920:41599026:41605894:41606004:41613466:41613534 | 41605894:41606004 |
| exon_skip_173470 | chr4 | 41676382:41676462:41680006:41680098:41680955:41681059 | 41680006:41680098 |
| exon_skip_194503 | chr4 | 41598920:41599026:41603875:41603905:41605894:41606004 | 41603875:41603905 |
| exon_skip_215250 | chr4 | 41685758:41685830:41687840:41687917:41689527:41689635 | 41687840:41687917 |
| exon_skip_264257 | chr4 | 41680955:41681059:41682333:41682460:41684397:41684518 | 41682333:41682460 |
| exon_skip_271708 | chr4 | 41689527:41689635:41692282:41692384:41697160:41697314 | 41692282:41692384 |
| exon_skip_280693 | chr4 | 41685710:41685830:41687840:41687917:41689527:41689635 | 41687840:41687917 |
| exon_skip_29783 | chr4 | 41494536:41494606:41524409:41524478:41598920:41598948 | 41524409:41524478 |
| exon_skip_50291 | chr4 | 41619188:41619440:41638932:41638967:41644500:41644626 | 41638932:41638967 |
| exon_skip_64797 | chr4 | 41524409:41524478:41551125:41551191:41551321:41551395 | 41551125:41551191 |
| exon_skip_65587 | chr4 | 41671554:41671594:41676379:41676462:41680006:41680098 | 41676379:41676462 |
| exon_skip_70415 | chr4 | 41671554:41671594:41676382:41676462:41680006:41680098 | 41676382:41676462 |
| 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 |
| exon_skip_280693 | MSBB_PG | 2.080272e-01 | 3.776364e-01 | -1.696092e-01 | 2.055792e-07 |
| exon_skip_156711 | MSBB_PG | 1.257931e-01 | 2.392727e-01 | -1.134796e-01 | 3.877306e-06 |
| exon_skip_65587 | Mayo_CB | 1.453947e-01 | 2.605000e-01 | -1.151053e-01 | 1.215308e-07 |
Top |
Open reading frame (ORF) annotation in the exon skipping event for LIMCH1 |
| 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 |
| ENST00000313860 | 41524409 | 41524478 | Frame-shift |
| ENST00000313860 | 41603875 | 41603905 | Frame-shift |
| ENST00000313860 | 41638932 | 41638967 | In-frame |
| ENST00000313860 | 41676379 | 41676462 | In-frame |
| ENST00000313860 | 41680006 | 41680098 | In-frame |
| ENST00000313860 | 41687840 | 41687917 | 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 |
| ENST00000313860 | 41524409 | 41524478 | Frame-shift |
| ENST00000313860 | 41603875 | 41603905 | Frame-shift |
| ENST00000313860 | 41638932 | 41638967 | In-frame |
| ENST00000313860 | 41676379 | 41676462 | In-frame |
| ENST00000313860 | 41680006 | 41680098 | In-frame |
| ENST00000313860 | 41687840 | 41687917 | 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 |
| ENST00000313860 | 41524409 | 41524478 | Frame-shift |
| ENST00000313860 | 41603875 | 41603905 | Frame-shift |
| ENST00000313860 | 41682333 | 41682460 | Frame-shift |
| ENST00000313860 | 41692282 | 41692384 | Frame-shift |
| ENST00000313860 | 41638932 | 41638967 | In-frame |
| ENST00000313860 | 41650393 | 41650608 | In-frame |
| ENST00000313860 | 41676379 | 41676462 | In-frame |
| ENST00000313860 | 41680006 | 41680098 | In-frame |
| ENST00000313860 | 41687840 | 41687917 | In-frame |
Top |
Infer the effects of exon skipping event on protein functional features for LIMCH1 |
p-ENSG00000064042_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 |
| ENST00000313860 | 6182 | 1083 | 41638932 | 41638967 | 991 | 1025 | 312 | 323 |
| ENST00000313860 | 6182 | 1083 | 41676379 | 41676462 | 2339 | 2421 | 761 | 789 |
| ENST00000313860 | 6182 | 1083 | 41680006 | 41680098 | 2423 | 2514 | 789 | 820 |
| ENST00000313860 | 6182 | 1083 | 41687840 | 41687917 | 2992 | 3068 | 979 | 1004 |
| 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 |
| ENST00000313860 | 6182 | 1083 | 41638932 | 41638967 | 991 | 1025 | 312 | 323 |
| ENST00000313860 | 6182 | 1083 | 41676379 | 41676462 | 2339 | 2421 | 761 | 789 |
| ENST00000313860 | 6182 | 1083 | 41680006 | 41680098 | 2423 | 2514 | 789 | 820 |
| ENST00000313860 | 6182 | 1083 | 41687840 | 41687917 | 2992 | 3068 | 979 | 1004 |
| 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 |
| ENST00000313860 | 6182 | 1083 | 41638932 | 41638967 | 991 | 1025 | 312 | 323 |
| ENST00000313860 | 6182 | 1083 | 41650393 | 41650608 | 1721 | 1935 | 555 | 627 |
| ENST00000313860 | 6182 | 1083 | 41676379 | 41676462 | 2339 | 2421 | 761 | 789 |
| ENST00000313860 | 6182 | 1083 | 41680006 | 41680098 | 2423 | 2514 | 789 | 820 |
| ENST00000313860 | 6182 | 1083 | 41687840 | 41687917 | 2992 | 3068 | 979 | 1004 |
| 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 |
| Q9UPQ0 | 312 | 323 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 312 | 323 | 313 | 324 | Alternative sequence | ID=VSP_026547;Note=In isoform 4%2C isoform 5 and isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:17974005;Dbxref=PMID:17974005 |
| Q9UPQ0 | 312 | 323 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| Q9UPQ0 | 312 | 323 | 313 | 313 | Modified residue | Note=Phosphotyrosine;Ontology_term=ECO:0000250;evidence=ECO:0000250|UniProtKB:Q3UH68 |
| Q9UPQ0 | 312 | 323 | 251 | 639 | Region | Note=Mediates interaction with MYH9;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:28228547;Dbxref=PMID:28228547 |
| Q9UPQ0 | 761 | 789 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 761 | 789 | 762 | 762 | Alternative sequence | ID=VSP_026549;Note=In isoform 3%2C isoform 4%2C isoform 5%2C isoform 6%2C isoform 8%2C isoform 9 and isoform 10. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:15489334,ECO:0000303|PubMed:17974005;Dbxref=PMID:15489334,PMID:17974 |
| Q9UPQ0 | 761 | 789 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| Q9UPQ0 | 761 | 789 | 782 | 823 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q9UPQ0 | 789 | 820 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 789 | 820 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| Q9UPQ0 | 789 | 820 | 782 | 823 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q9UPQ0 | 979 | 1004 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 979 | 1004 | 980 | 1005 | Alternative sequence | ID=VSP_026550;Note=In isoform 2%2C isoform 4%2C isoform 5%2C isoform 6%2C isoform 8%2C isoform 9 and isoform 10. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:15489334,ECO:0000303|PubMed:17974005;Dbxref=PMID:15489334,PMID:17974 |
| Q9UPQ0 | 979 | 1004 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| 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 |
| Q9UPQ0 | 312 | 323 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 312 | 323 | 313 | 324 | Alternative sequence | ID=VSP_026547;Note=In isoform 4%2C isoform 5 and isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:17974005;Dbxref=PMID:17974005 |
| Q9UPQ0 | 312 | 323 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| Q9UPQ0 | 312 | 323 | 313 | 313 | Modified residue | Note=Phosphotyrosine;Ontology_term=ECO:0000250;evidence=ECO:0000250|UniProtKB:Q3UH68 |
| Q9UPQ0 | 312 | 323 | 251 | 639 | Region | Note=Mediates interaction with MYH9;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:28228547;Dbxref=PMID:28228547 |
| Q9UPQ0 | 761 | 789 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 761 | 789 | 762 | 762 | Alternative sequence | ID=VSP_026549;Note=In isoform 3%2C isoform 4%2C isoform 5%2C isoform 6%2C isoform 8%2C isoform 9 and isoform 10. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:15489334,ECO:0000303|PubMed:17974005;Dbxref=PMID:15489334,PMID:17974 |
| Q9UPQ0 | 761 | 789 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| Q9UPQ0 | 761 | 789 | 782 | 823 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q9UPQ0 | 789 | 820 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 789 | 820 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| Q9UPQ0 | 789 | 820 | 782 | 823 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q9UPQ0 | 979 | 1004 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 979 | 1004 | 980 | 1005 | Alternative sequence | ID=VSP_026550;Note=In isoform 2%2C isoform 4%2C isoform 5%2C isoform 6%2C isoform 8%2C isoform 9 and isoform 10. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:15489334,ECO:0000303|PubMed:17974005;Dbxref=PMID:15489334,PMID:17974 |
| Q9UPQ0 | 979 | 1004 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| 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 |
| Q9UPQ0 | 312 | 323 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 312 | 323 | 313 | 324 | Alternative sequence | ID=VSP_026547;Note=In isoform 4%2C isoform 5 and isoform 9. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:17974005;Dbxref=PMID:17974005 |
| Q9UPQ0 | 312 | 323 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| Q9UPQ0 | 312 | 323 | 313 | 313 | Modified residue | Note=Phosphotyrosine;Ontology_term=ECO:0000250;evidence=ECO:0000250|UniProtKB:Q3UH68 |
| Q9UPQ0 | 312 | 323 | 251 | 639 | Region | Note=Mediates interaction with MYH9;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:28228547;Dbxref=PMID:28228547 |
| Q9UPQ0 | 555 | 627 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 555 | 627 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| Q9UPQ0 | 555 | 627 | 601 | 601 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:20068231;Dbxref=PMID:20068231 |
| Q9UPQ0 | 555 | 627 | 251 | 639 | Region | Note=Mediates interaction with MYH9;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:28228547;Dbxref=PMID:28228547 |
| Q9UPQ0 | 555 | 627 | 611 | 611 | Sequence conflict | Note=S->G;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q9UPQ0 | 555 | 627 | 622 | 622 | Sequence conflict | Note=V->I;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q9UPQ0 | 761 | 789 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 761 | 789 | 762 | 762 | Alternative sequence | ID=VSP_026549;Note=In isoform 3%2C isoform 4%2C isoform 5%2C isoform 6%2C isoform 8%2C isoform 9 and isoform 10. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:15489334,ECO:0000303|PubMed:17974005;Dbxref=PMID:15489334,PMID:17974 |
| Q9UPQ0 | 761 | 789 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| Q9UPQ0 | 761 | 789 | 782 | 823 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q9UPQ0 | 789 | 820 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 789 | 820 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
| Q9UPQ0 | 789 | 820 | 782 | 823 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q9UPQ0 | 979 | 1004 | 298 | 1083 | Alternative sequence | ID=VSP_026545;Note=In isoform 7. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
| Q9UPQ0 | 979 | 1004 | 980 | 1005 | Alternative sequence | ID=VSP_026550;Note=In isoform 2%2C isoform 4%2C isoform 5%2C isoform 6%2C isoform 8%2C isoform 9 and isoform 10. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:15489334,ECO:0000303|PubMed:17974005;Dbxref=PMID:15489334,PMID:17974 |
| Q9UPQ0 | 979 | 1004 | 1 | 1083 | Chain | ID=PRO_0000293619;Note=LIM and calponin homology domains-containing protein 1 |
Top |
3'-UTR located exon skipping events that lost miRNA binding sites in LIMCH1 |
| 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 |
Top |
SNVs in the skipped exons for LIMCH1 |
| - 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 |
Top |
AD stage-associated exon skippint events for LIMCH1 |
| 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 |
| ADstage | MSBB | IFG | exon_skip_50291 | 4.361616e-01 | 2.032535e-02 | chr4 | + | 41619188 | 41619440 | 41638932 | 41638967 | 41644500 | 41644626 |
| CDR | MSBB | IFG | exon_skip_50291 | 4.664250e-01 | 1.235240e-02 | chr4 | + | 41619188 | 41619440 | 41638932 | 41638967 | 41644500 | 41644626 |
Top |
Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for LIMCH1 |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
Top |
Correlation with RNA binding proteins (RBPs) for LIMCH1 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | RBM6 | exon_skip_65587 | -4.950824e-01 | 8.951518e-10 |
| CB | TRA2A | exon_skip_65587 | -4.723152e-01 | 6.426875e-09 |
| CB | NUP42 | exon_skip_65587 | 4.653732e-01 | 1.139802e-08 |
| CB | PABPN1 | exon_skip_70415 | -4.277956e-01 | 1.860674e-08 |
| CB | TRA2A | exon_skip_70415 | -6.002434e-01 | 6.163247e-17 |
| CB | SNRPA | exon_skip_70415 | -4.055903e-01 | 1.134873e-07 |
| CB | HNRNPK | exon_skip_280693 | 5.052660e-01 | 1.103994e-11 |
| CB | PUF60 | exon_skip_280693 | 4.688509e-01 | 4.573972e-10 |
| CB | RALYL | exon_skip_280693 | 5.366249e-01 | 3.078997e-13 |
| CB | PTBP3 | exon_skip_280693 | 4.260750e-01 | 2.150622e-08 |
| CB | SRSF9 | exon_skip_280693 | 4.834656e-01 | 1.081355e-10 |
| CB | PCBP4 | exon_skip_156711 | 4.137646e-01 | 5.921763e-08 |
| CB | RALYL | exon_skip_156711 | 4.463308e-01 | 3.710541e-09 |
| CB | SRSF9 | exon_skip_156711 | 4.135653e-01 | 6.017673e-08 |
| DLPFC | PTBP3 | exon_skip_280693 | 4.075023e-01 | 5.405521e-15 |
| FL | HNRNPK | exon_skip_280693 | 4.377520e-01 | 1.125092e-10 |
| FL | RALYL | exon_skip_280693 | 5.115577e-01 | 1.341840e-14 |
| FL | RALYL | exon_skip_156711 | 4.430203e-01 | 7.911385e-11 |
| HCC | RBM25 | exon_skip_280693 | -4.744052e-01 | 9.986033e-17 |
| HCC | RBM6 | exon_skip_280693 | -6.720525e-01 | 3.144808e-37 |
| HCC | IGF2BP2 | exon_skip_280693 | -4.305515e-01 | 9.530227e-14 |
| HCC | PCBP1 | exon_skip_280693 | -4.216340e-01 | 3.421906e-13 |
| HCC | PCBP4 | exon_skip_280693 | -6.242619e-01 | 6.730936e-31 |
| HCC | TRA2A | exon_skip_280693 | -4.286824e-01 | 1.249749e-13 |
| HCC | PCBP2 | exon_skip_280693 | -4.068787e-01 | 2.615973e-12 |
| HCC | PUF60 | exon_skip_280693 | -4.441465e-01 | 1.261041e-14 |
| HCC | PTBP1 | exon_skip_280693 | -7.102852e-01 | 3.235092e-43 |
| HCC | EWSR1 | exon_skip_280693 | -4.155811e-01 | 7.977723e-13 |
| HCC | SRSF5 | exon_skip_280693 | -5.022609e-01 | 7.451944e-19 |
| HCC | RBM4B | exon_skip_280693 | -6.036305e-01 | 1.720930e-28 |
| HCC | RBM25 | exon_skip_156711 | -4.206327e-01 | 3.940870e-13 |
| HCC | RBM6 | exon_skip_156711 | -5.662315e-01 | 1.514256e-24 |
| HCC | PCBP4 | exon_skip_156711 | -5.137826e-01 | 8.591864e-20 |
| HCC | PTBP1 | exon_skip_156711 | -6.126792e-01 | 1.590605e-29 |
| HCC | SRSF5 | exon_skip_156711 | -4.081447e-01 | 2.205592e-12 |
| HCC | RBM4B | exon_skip_156711 | -4.978944e-01 | 1.654449e-18 |
| IFG | IGF2BP2 | exon_skip_280693 | -5.211776e-01 | 4.456624e-03 |
| IFG | RALYL | exon_skip_280693 | 6.873212e-01 | 5.333548e-05 |
| IFG | RBM23 | exon_skip_280693 | 4.200144e-01 | 2.606526e-02 |
| IFG | NOVA1 | exon_skip_280693 | 5.869216e-01 | 1.026758e-03 |
| IFG | TRA2A | exon_skip_156711 | 4.087177e-01 | 3.081532e-02 |
| IFG | RALYL | exon_skip_156711 | 6.666676e-01 | 1.071801e-04 |
| IFG | NOVA1 | exon_skip_156711 | 5.764229e-01 | 1.325108e-03 |
| IFG | RBM4B | exon_skip_156711 | 4.406366e-01 | 1.893292e-02 |
| PCC | RBM6 | exon_skip_280693 | -5.317897e-01 | 4.287336e-17 |
| PCC | PCBP4 | exon_skip_280693 | -5.106711e-01 | 1.115933e-15 |
| PCC | RALYL | exon_skip_280693 | 4.337831e-01 | 2.817147e-11 |
| PCC | PTBP1 | exon_skip_280693 | -7.194749e-01 | 1.435496e-35 |
| PCC | RBM6 | exon_skip_156711 | -5.430286e-01 | 6.882175e-18 |
| PCC | PCBP4 | exon_skip_156711 | -5.465533e-01 | 3.822898e-18 |
| PCC | PTBP1 | exon_skip_156711 | -7.050530e-01 | 1.243980e-33 |
| PG | PCBP1 | exon_skip_280693 | 5.934501e-01 | 1.314805e-20 |
| PG | PUF60 | exon_skip_280693 | 4.116467e-01 | 1.155604e-09 |
| PG | RALYL | exon_skip_280693 | 5.463254e-01 | 4.102515e-17 |
| PG | IGF2BP2 | exon_skip_156711 | -4.021622e-01 | 3.571315e-09 |
| PG | PCBP1 | exon_skip_156711 | 5.285507e-01 | 8.675758e-16 |
| PG | RALYL | exon_skip_156711 | 4.756157e-01 | 1.102392e-12 |
| STG | RALYL | exon_skip_280693 | 5.191899e-01 | 1.141982e-07 |
| STG | PTBP1 | exon_skip_280693 | -4.284905e-01 | 2.033562e-05 |
| STG | IGF2BP2 | exon_skip_156711 | -4.123520e-01 | 4.420103e-05 |
| STG | RALYL | exon_skip_156711 | 5.408967e-01 | 2.603246e-08 |
| STG | NOVA1 | exon_skip_156711 | 4.437033e-01 | 9.425479e-06 |
| TC | RBM25 | exon_skip_215250 | 4.205813e-01 | 3.072367e-08 |
| TC | RBM6 | exon_skip_215250 | -4.191557e-01 | 3.457144e-08 |
| TC | HNRNPK | exon_skip_215250 | 4.024508e-01 | 1.323687e-07 |
| TC | RALYL | exon_skip_215250 | 8.910706e-01 | 4.422685e-56 |
| TC | PTBP1 | exon_skip_215250 | -4.217119e-01 | 2.796796e-08 |
| TC | PTBP3 | exon_skip_215250 | 5.619344e-01 | 1.065357e-14 |
| TC | SRSF5 | exon_skip_215250 | 4.067959e-01 | 9.400941e-08 |
| TC | NOVA1 | exon_skip_215250 | 6.005031e-01 | 4.726601e-17 |
| TC | RBM25 | exon_skip_141960 | 4.579514e-01 | 1.137973e-09 |
| TC | RBM6 | exon_skip_141960 | -4.644646e-01 | 6.144708e-10 |
| TC | HNRNPK | exon_skip_141960 | 4.684246e-01 | 4.197727e-10 |
| TC | RALYL | exon_skip_141960 | 7.997830e-01 | 7.557819e-37 |
| TC | PTBP3 | exon_skip_141960 | 5.799058e-01 | 9.324261e-16 |
| TC | EWSR1 | exon_skip_141960 | 4.059088e-01 | 1.008523e-07 |
| TC | SRSF5 | exon_skip_141960 | 4.218288e-01 | 2.769714e-08 |
| TC | NOVA1 | exon_skip_141960 | 5.982393e-01 | 6.628855e-17 |
Top |
RelatedDrugs for LIMCH1 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
RelatedDiseases for LIMCH1 |
| 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)
|