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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 RNF41 |
 Gene summary |
| Gene information | Gene symbol | RNF41 | Gene ID | 10193 |
| Gene name | ring finger protein 41 | |
| Synonyms | FLRF|NRDP1|SBBI03 | |
| Cytomap | 12q13.3 | |
| Type of gene | protein-coding | |
| Description | E3 ubiquitin-protein ligase NRDP1RING-type E3 ubiquitin transferase NRDP1fetal liver ring fingerneuregulin receptor degradation protein-1ring finger protein 41, E3 ubiquitin protein ligase | |
| 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 |
| RNF41 | GO:0000209 | protein polyubiquitination | 14765125|18541373 |
| RNF41 | GO:0008285 | negative regulation of cell proliferation | 17145873 |
| RNF41 | GO:0010498 | proteasomal protein catabolic process | 18541373 |
| RNF41 | GO:0043408 | regulation of MAPK cascade | 17145873 |
| RNF41 | GO:0051865 | protein autoubiquitination | 24105792 |
| RNF41 | GO:0051896 | regulation of protein kinase B signaling | 17145873 |
| RNF41 | GO:0097191 | extrinsic apoptotic signaling pathway | 14765125 |
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Gene structures and expression levels for RNF41 |
| 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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ENSG00000181852
| 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 |
| 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 RNF41 |
| 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_11304 | chr12 | 56210301:56210568:56212996:56213138:56213958:56214018 | 56212996:56213138 |
| exon_skip_133586 | chr12 | 56210343:56210568:56212996:56213077:56213958:56214070 | 56212996:56213077 |
| exon_skip_165480 | chr12 | 56213958:56214070:56216429:56216613:56221903:56221922 | 56216429:56216613 |
| exon_skip_188428 | chr12 | 56210501:56210568:56212996:56213138:56213958:56214018 | 56212996:56213138 |
| exon_skip_188500 | chr12 | 56210343:56210568:56212996:56213138:56213958:56213982 | 56212996:56213138 |
| exon_skip_222750 | chr12 | 56206770:56206798:56207168:56207310:56207646:56207749 | 56207168:56207310 |
| exon_skip_269704 | chr12 | 56210501:56210568:56212996:56213077:56213958:56214018 | 56212996:56213077 |
| exon_skip_281009 | chr12 | 56206749:56206798:56207168:56207310:56207646:56207749 | 56207168:56207310 |
| exon_skip_49881 | chr12 | 56213958:56214070:56216429:56216613:56221760:56221843 | 56216429:56216613 |
| exon_skip_53201 | chr12 | 56208163:56208298:56210297:56210568:56213958:56214018 | 56210297:56210568 |
| exon_skip_85912 | chr12 | 56210343:56210568:56212996:56213077:56213958:56214018 | 56212996:56213077 |
| exon_skip_97835 | chr12 | 56210343:56210568:56212996:56213138:56213958:56214018 | 56212996:56213138 |
| 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 RNF41 |
| 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 |
| ENST00000345093 | 56210297 | 56210568 | Frame-shift |
| ENST00000552656 | 56210297 | 56210568 | Frame-shift |
| ENST00000615206 | 56210297 | 56210568 | Frame-shift |
| 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 |
| 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 |
| ENST00000552656 | 56216429 | 56216613 | 3UTR-3UTR |
| ENST00000345093 | 56210297 | 56210568 | Frame-shift |
| ENST00000552656 | 56210297 | 56210568 | Frame-shift |
| ENST00000615206 | 56210297 | 56210568 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for RNF41 |
p-ENSG00000181852_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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
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3'-UTR located exon skipping events that lost miRNA binding sites in RNF41 |
| 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 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-6729-3p | chr12:56216581-56216588 | 8mer-1a | chr12:56216572-56216593 | 168.00 | -20.59 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-6878-5p | chr12:56216508-56216515 | 8mer-1a | chr12:56216494-56216517 | 160.00 | -28.71 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-3913-3p | chr12:56216592-56216599 | 8mer-1a | chr12:56216579-56216600 | 163.00 | -20.79 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-331-3p | chr12:56216578-56216585 | 8mer-1a | chr12:56216572-56216593 | 168.00 | -20.59 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-3612 | chr12:56216481-56216488 | 8mer-1a | chr12:56216469-56216493 | 158.00 | -28.86 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-5693 | chr12:56216495-56216502 | 8mer-1a | chr12:56216494-56216517 | 160.00 | -28.71 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-4747-5p | chr12:56216553-56216560 | 8mer-1a | chr12:56216538-56216560 | 165.00 | -24.60 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-6515-3p | chr12:56216500-56216507 | 8mer-1a | chr12:56216494-56216517 | 160.00 | -28.71 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-5196-5p | chr12:56216553-56216560 | 8mer-1a | chr12:56216538-56216560 | 165.00 | -24.60 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-6798-5p | chr12:56216473-56216480 | 8mer-1a | chr12:56216469-56216493 | 158.00 | -28.86 |
| Mayo | ENST00000552656 | 56216429 | 56216613 | hsa-miR-650 | chr12:56216481-56216488 | 8mer-1a | chr12:56216469-56216493 | 158.00 | -28.86 |
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SNVs in the skipped exons for RNF41 |
| - 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 RNF41 |
| 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 RNF41 |
| 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 RNF41 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for RNF41 |
| 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 RNF41 |
| 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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