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| Open reading frame (ORF) annotation in the exon skipping event |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
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Gene summary for YTHDF3 |
 Gene summary |
| Gene information | Gene symbol | YTHDF3 | Gene ID | 253943 |
| Gene name | YTH N6-methyladenosine RNA binding protein 3 | |
| Synonyms | - | |
| Cytomap | 8q12.3 | |
| Type of gene | protein-coding | |
| Description | YTH domain-containing family protein 3YTH N(6)-methyladenosine RNA binding protein 3YTH domain family protein 3YTH domain family, member 3 | |
| Modification date | 20180519 | |
| UniProtAcc | Q7Z739 | |
| Context | PubMed: YTHDF3 [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 |
| YTHDF3 | GO:0045948 | positive regulation of translational initiation | 28106076 |
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Exon skipping events across known transcript of Ensembl for YTHDF3 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. |
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Gene isoform structures and expression levels for YTHDF3 |
| Expression levels of gene isoforms across TCGA. |
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| Expression levels of gene isoforms across GTEx. |
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Exon skipping events with PSIs in TCGA for YTHDF3 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_483768 | 8 | 64081947:64081970:64085211:64085357:64087889:64087975 | 64085211:64085357 | ENSG00000185728.12 | ENST00000517375.1,ENST00000523056.1,ENST00000517303.1,ENST00000518763.1 |
| exon_skip_483769 | 8 | 64081947:64081970:64086209:64086240:64087889:64087975 | 64086209:64086240 | ENSG00000185728.12 | ENST00000524135.1,ENST00000542911.2 |
| exon_skip_483770 | 8 | 64081947:64081970:64087889:64087975:64098705:64098755 | 64087889:64087975 | ENSG00000185728.12 | ENST00000521674.1,ENST00000520640.1,ENST00000521547.1 |
| exon_skip_483771 | 8 | 64081947:64081970:64087889:64087975:64122240:64122663 | 64087889:64087975 | ENSG00000185728.12 | ENST00000517371.1 |
| exon_skip_483772 | 8 | 64081947:64081970:64087895:64087975:64098705:64098755 | 64087895:64087975 | ENSG00000185728.12 | ENST00000523455.1 |
| exon_skip_483776 | 8 | 64087895:64087975:64098705:64100303:64122240:64122663 | 64098705:64100303 | ENSG00000185728.12 | ENST00000524135.1,ENST00000521674.1,ENST00000520640.1,ENST00000517303.1,ENST00000542911.2 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for YTHDF3 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_483768 | 8 | 64081947:64081970:64085211:64085357:64087889:64087975 | 64085211:64085357 | ENSG00000185728.12 | ENST00000518763.1,ENST00000517375.1,ENST00000523056.1,ENST00000517303.1 |
| exon_skip_483769 | 8 | 64081947:64081970:64086209:64086240:64087889:64087975 | 64086209:64086240 | ENSG00000185728.12 | ENST00000524135.1,ENST00000542911.2 |
| exon_skip_483770 | 8 | 64081947:64081970:64087889:64087975:64098705:64098755 | 64087889:64087975 | ENSG00000185728.12 | ENST00000521674.1,ENST00000521547.1,ENST00000520640.1 |
| exon_skip_483771 | 8 | 64081947:64081970:64087889:64087975:64122240:64122663 | 64087889:64087975 | ENSG00000185728.12 | ENST00000517371.1 |
| exon_skip_483772 | 8 | 64081947:64081970:64087895:64087975:64098705:64098755 | 64087895:64087975 | ENSG00000185728.12 | ENST00000523455.1 |
| exon_skip_483776 | 8 | 64087895:64087975:64098705:64100303:64122240:64122663 | 64098705:64100303 | ENSG00000185728.12 | ENST00000521674.1,ENST00000524135.1,ENST00000542911.2,ENST00000520640.1,ENST00000517303.1 |
| PSI values of skipped exons in GTEx. |
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| * Skipped exon sequences. |
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Open reading frame (ORF) annotation in the exon skipping event for YTHDF3 |
| 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 |
| 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 |
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Infer the effects of exon skipping event on protein functional features for YTHDF3 |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
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| 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 |
| 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 |
| 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 |
| 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 |
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SNVs in the skipped exons for YTHDF3 |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
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| - 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 |
| LIHC | TCGA-DD-A3A0-01 | exon_skip_483772 exon_skip_483770 exon_skip_483771 | 64087890 | 64087975 | 64087942 | 64087942 | Frame_Shift_Del | T | - | p.D34fs |
| LIHC | TCGA-DD-A3A0-01 | exon_skip_483772 exon_skip_483770 exon_skip_483771 | 64087896 | 64087975 | 64087942 | 64087942 | Frame_Shift_Del | T | - | p.D34fs |
| LIHC | TCGA-DD-A1EG-01 | exon_skip_483776 | 64098706 | 64100303 | 64099245 | 64099245 | Frame_Shift_Del | C | - | p.P226fs |
| PAAD | TCGA-HZ-8001-01 | exon_skip_483776 | 64098706 | 64100303 | 64099487 | 64099487 | Frame_Shift_Del | A | - | p.P305fs |
| LIHC | TCGA-DD-A3A0-01 | exon_skip_483776 | 64098706 | 64100303 | 64100256 | 64100256 | Frame_Shift_Del | T | - | p.F562fs |
| BLCA | TCGA-FD-A62O-01 | exon_skip_483776 | 64098706 | 64100303 | 64098993 | 64098993 | Nonsense_Mutation | C | T | p.Q141* |
| HNSC | TCGA-CV-7101-01 | exon_skip_483776 | 64098706 | 64100303 | 64099527 | 64099527 | Nonsense_Mutation | C | T | p.Q319* |
| HNSC | TCGA-CV-7101-01 | exon_skip_483776 | 64098706 | 64100303 | 64099527 | 64099527 | Nonsense_Mutation | C | T | p.Q320* |
| - 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 |
| CL34_LARGE_INTESTINE | 64098706 | 64100303 | 64099647 | 64099648 | Frame_Shift_Del | AG | - | p.R359fs |
| CW2_LARGE_INTESTINE | 64098706 | 64100303 | 64098944 | 64098945 | Frame_Shift_Ins | - | T | p.F125fs |
| GP2D_LARGE_INTESTINE | 64087896 | 64087975 | 64087919 | 64087919 | Missense_Mutation | A | G | p.K27E |
| GP2D_LARGE_INTESTINE | 64087890 | 64087975 | 64087919 | 64087919 | Missense_Mutation | A | G | p.K27E |
| GP5D_LARGE_INTESTINE | 64087896 | 64087975 | 64087919 | 64087919 | Missense_Mutation | A | G | p.K27E |
| GP5D_LARGE_INTESTINE | 64087890 | 64087975 | 64087919 | 64087919 | Missense_Mutation | A | G | p.K27E |
| EN_ENDOMETRIUM | 64087896 | 64087975 | 64087953 | 64087953 | Missense_Mutation | A | G | p.Y38C |
| EN_ENDOMETRIUM | 64087890 | 64087975 | 64087953 | 64087953 | Missense_Mutation | A | G | p.Y38C |
| MKN74_STOMACH | 64098706 | 64100303 | 64098784 | 64098784 | Missense_Mutation | G | T | p.G71V |
| NCIH3255_LUNG | 64098706 | 64100303 | 64098817 | 64098817 | Missense_Mutation | C | G | p.P82R |
| EN_ENDOMETRIUM | 64098706 | 64100303 | 64098837 | 64098837 | Missense_Mutation | T | C | p.Y89H |
| JURKAT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 64098706 | 64100303 | 64098872 | 64098872 | Missense_Mutation | A | G | p.I100M |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 64098706 | 64100303 | 64099012 | 64099012 | Missense_Mutation | G | A | p.S147N |
| DND41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 64098706 | 64100303 | 64099012 | 64099012 | Missense_Mutation | G | A | p.S147N |
| NCIH2141_LUNG | 64098706 | 64100303 | 64099012 | 64099012 | Missense_Mutation | G | T | p.S147I |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 64098706 | 64100303 | 64099012 | 64099012 | Missense_Mutation | G | A | p.S147N |
| OCIAML5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 64098706 | 64100303 | 64099012 | 64099012 | Missense_Mutation | G | A | p.S147N |
| CW2_LARGE_INTESTINE | 64098706 | 64100303 | 64099192 | 64099192 | Missense_Mutation | T | A | p.V207E |
| COLO668_LUNG | 64098706 | 64100303 | 64099470 | 64099470 | Missense_Mutation | A | T | p.I300F |
| LS123_LARGE_INTESTINE | 64098706 | 64100303 | 64099480 | 64099480 | Missense_Mutation | C | T | p.P303L |
| NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 64098706 | 64100303 | 64099725 | 64099725 | Missense_Mutation | C | T | p.P385S |
| HEC151_ENDOMETRIUM | 64098706 | 64100303 | 64099749 | 64099749 | Missense_Mutation | G | A | p.V393M |
| RCHACV_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 64098706 | 64100303 | 64099749 | 64099749 | Missense_Mutation | G | A | p.V393M |
| NCIH2887_LUNG | 64098706 | 64100303 | 64099764 | 64099764 | Missense_Mutation | A | G | p.K398E |
| IM95_STOMACH | 64098706 | 64100303 | 64099767 | 64099767 | Missense_Mutation | G | A | p.A399T |
| SNU407_LARGE_INTESTINE | 64098706 | 64100303 | 64099818 | 64099818 | Missense_Mutation | C | T | p.R416C |
| NCIH2172_LUNG | 64098706 | 64100303 | 64099819 | 64099819 | Missense_Mutation | G | T | p.R416L |
| HCC366_LUNG | 64098706 | 64100303 | 64099856 | 64099856 | Missense_Mutation | A | G | p.I428M |
| CMLT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 64098706 | 64100303 | 64099909 | 64099909 | Missense_Mutation | G | A | p.R446H |
| SNU81_LARGE_INTESTINE | 64098706 | 64100303 | 64100058 | 64100058 | Missense_Mutation | T | C | p.W496R |
| LS411N_LARGE_INTESTINE | 64098706 | 64100303 | 64100059 | 64100059 | Missense_Mutation | G | T | p.W496L |
| WSUNHL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 64098706 | 64100303 | 64100063 | 64100063 | Missense_Mutation | G | T | p.K497N |
| LNCAPCLONEFGC_PROSTATE | 64098706 | 64100303 | 64100109 | 64100109 | Missense_Mutation | A | T | p.N513Y |
| HCT116_LARGE_INTESTINE | 64098706 | 64100303 | 64100223 | 64100223 | Missense_Mutation | A | G | p.T551A |
| MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 64098706 | 64100303 | 64100224 | 64100224 | Missense_Mutation | C | T | p.T551I |
| HEC6_ENDOMETRIUM | 64098706 | 64100303 | 64100235 | 64100235 | Missense_Mutation | A | G | p.T555A |
| HEC251_ENDOMETRIUM | 64098706 | 64100303 | 64100247 | 64100247 | Missense_Mutation | T | G | p.F559V |
| SNUC5_LARGE_INTESTINE | 64098706 | 64100303 | 64100290 | 64100290 | Missense_Mutation | A | G | p.E573G |
| HCC1438_LUNG | 64098706 | 64100303 | 64099410 | 64099410 | Nonsense_Mutation | G | T | p.E280* |
| HCC1195_LUNG | 64098706 | 64100303 | 64099593 | 64099593 | Nonsense_Mutation | C | T | p.Q341* |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for YTHDF3 |
| 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 |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for YTHDF3 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for YTHDF3 |
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RelatedDrugs for YTHDF3 |
| 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 |
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RelatedDiseases for YTHDF3 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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