|
||||||
|
 | |
| |
| |
| |
| Open reading frame (ORF) annotation in the exon skipping event |
| |
| |
| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
| |
|
Gene summary for CCNL1 |
 Gene summary |
| Gene information | Gene symbol | CCNL1 | Gene ID | 57018 |
| Gene name | cyclin L1 | |
| Synonyms | ANIA6A|BM-001|PRO1073|ania-6a | |
| Cytomap | 3q25.31 | |
| Type of gene | protein-coding | |
| Description | cyclin-L1cyclin L ania-6acyclin L gammacyclin-L | |
| Modification date | 20180523 | |
| UniProtAcc | Q9UK58 | |
| Context | PubMed: CCNL1 [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract] - Title (PMID) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
Top |
Exon skipping events across known transcript of Ensembl for CCNL1 from UCSC genome browser |
| Skipped exons in TCGA and GTEx 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. |
 |
Top |
Gene isoform structures and expression levels for CCNL1 |
| Expression levels of gene isoforms across TCGA. |
 |
| Expression levels of gene isoforms across GTEx. |
 |
Top |
Exon skipping events with PSIs in TCGA for CCNL1 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_389565 | 3 | 156864296:156864396:156867075:156867174:156867273:156867385 | 156867075:156867174 | ENSG00000163660.7 | ENST00000461804.1 |
| exon_skip_389566 | 3 | 156866104:156866378:156867075:156867174:156867273:156867385 | 156867075:156867174 | ENSG00000163660.7 | ENST00000474539.1,ENST00000295926.3,ENST00000476744.1,ENST00000468977.1,ENST00000464316.1,ENST00000470121.1,ENST00000475298.1,ENST00000471247.1 |
| exon_skip_389569 | 3 | 156868070:156868170:156869274:156869380:156869517:156869719 | 156869274:156869380 | ENSG00000163660.7 | ENST00000470121.1 |
| exon_skip_389575 | 3 | 156868070:156868170:156869517:156869719:156869965:156869999 | 156869517:156869719 | ENSG00000163660.7 | ENST00000475298.1 |
| exon_skip_389587 | 3 | 156869965:156870030:156870824:156870945:156876654:156876740 | 156870824:156870945 | ENSG00000163660.7 | ENST00000295926.3,ENST00000461804.1,ENST00000470121.1 |
| exon_skip_389588 | 3 | 156870830:156870945:156874724:156874872:156876654:156876740 | 156874724:156874872 | ENSG00000163660.7 | ENST00000478454.1,ENST00000477127.1 |
| exon_skip_389592 | 3 | 156870830:156870945:156874795:156874872:156876654:156876740 | 156874795:156874872 | ENSG00000163660.7 | ENST00000465947.1 |
| exon_skip_389594 | 3 | 156870830:156870945:156874799:156874872:156876654:156876740 | 156874799:156874872 | ENSG00000163660.7 | ENST00000476367.1,ENST00000479596.1,ENST00000475298.1 |
| PSI values of skipped exons in TCGA. |
 |
Top |
Exon skipping events with PSIs in GTEx for CCNL1 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_389565 | 3 | 156864296:156864396:156867075:156867174:156867273:156867385 | 156867075:156867174 | ENSG00000163660.7 | ENST00000461804.1 |
| exon_skip_389566 | 3 | 156866104:156866378:156867075:156867174:156867273:156867385 | 156867075:156867174 | ENSG00000163660.7 | ENST00000295926.3,ENST00000464316.1,ENST00000471247.1,ENST00000474539.1,ENST00000475298.1,ENST00000476744.1,ENST00000470121.1,ENST00000468977.1 |
| exon_skip_389569 | 3 | 156868070:156868170:156869274:156869380:156869517:156869719 | 156869274:156869380 | ENSG00000163660.7 | ENST00000470121.1 |
| exon_skip_389575 | 3 | 156868070:156868170:156869517:156869719:156869965:156869999 | 156869517:156869719 | ENSG00000163660.7 | ENST00000475298.1 |
| exon_skip_389587 | 3 | 156869965:156870030:156870824:156870945:156876654:156876740 | 156870824:156870945 | ENSG00000163660.7 | ENST00000461804.1,ENST00000295926.3,ENST00000470121.1 |
| exon_skip_389588 | 3 | 156870830:156870945:156874724:156874872:156876654:156876740 | 156874724:156874872 | ENSG00000163660.7 | ENST00000477127.1,ENST00000478454.1 |
| exon_skip_389592 | 3 | 156870830:156870945:156874795:156874872:156876654:156876740 | 156874795:156874872 | ENSG00000163660.7 | ENST00000465947.1 |
| exon_skip_389594 | 3 | 156870830:156870945:156874799:156874872:156876654:156876740 | 156874799:156874872 | ENSG00000163660.7 | ENST00000475298.1,ENST00000476367.1,ENST00000479596.1 |
| PSI values of skipped exons in GTEx. |
 |
| * Skipped exon sequences. |
Top |
Open reading frame (ORF) annotation in the exon skipping event for CCNL1 |
| Open reading frame (ORF) of individual exon skipping events in TCGA based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000295926 | 156870824 | 156870945 | Frame-shift |
| ENST00000295926 | 156867075 | 156867174 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000295926 | 156870824 | 156870945 | Frame-shift |
| ENST00000295926 | 156867075 | 156867174 | In-frame |
Top |
Infer the effects of exon skipping event on protein functional features for CCNL1 |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
 |
| Loci of skipped exons in TCGA 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 |
| ENST00000295926 | 2405 | 526 | 156867075 | 156867174 | 1253 | 1351 | 378 | 410 |
| Loci of skipped exons in GTEx 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 |
| ENST00000295926 | 2405 | 526 | 156867075 | 156867174 | 1253 | 1351 | 378 | 410 |
| Lost protein functional features of individual exon skipping events in TCGA. |
| 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 |
| Q9UK58 | 378 | 410 | 173 | 526 | Alternative sequence | ID=VSP_016121;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11980906;Dbxref=PMID:11980906 |
| Q9UK58 | 378 | 410 | 233 | 526 | Alternative sequence | ID=VSP_016123;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11980906;Dbxref=PMID:11980906 |
| Q9UK58 | 378 | 410 | 1 | 526 | Chain | ID=PRO_0000080480;Note=Cyclin-L1 |
| Q9UK58 | 378 | 410 | 390 | 432 | Region | Note=RS |
| Lost protein functional features of individual exon skipping events in GTEx. |
| 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 |
| Q9UK58 | 378 | 410 | 173 | 526 | Alternative sequence | ID=VSP_016121;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11980906;Dbxref=PMID:11980906 |
| Q9UK58 | 378 | 410 | 233 | 526 | Alternative sequence | ID=VSP_016123;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:11980906;Dbxref=PMID:11980906 |
| Q9UK58 | 378 | 410 | 1 | 526 | Chain | ID=PRO_0000080480;Note=Cyclin-L1 |
| Q9UK58 | 378 | 410 | 390 | 432 | Region | Note=RS |
Top |
SNVs in the skipped exons for CCNL1 |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
 |
| - Differential PSIs between mutated versus non-mutated samples. |
| - Non-synonymous mutations located in the skipped exons in TCGA. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
| - 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 |
| HEC59_ENDOMETRIUM | 156867076 | 156867174 | 156867082 | 156867083 | Frame_Shift_Ins | - | T | p.R409fs |
| LK2_LUNG | 156867076 | 156867174 | 156867089 | 156867089 | Missense_Mutation | T | C | p.T407A |
| SW756_CERVIX | 156870825 | 156870945 | 156870896 | 156870896 | Missense_Mutation | G | C | p.Q180E |
Top |
Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for CCNL1 |
| sQTL information located at the skipped exons. |
| Exon skip ID | Chromosome | Three exons | Skippped exon | ENST | Cancer type | SNP id | Location | DNA change (ref/var) | P-value |
Top |
Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for CCNL1 |
 |
Top |
Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for CCNL1 |
Top |
RelatedDrugs for CCNL1 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
RelatedDiseases for CCNL1 |
| 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)
|