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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 NFYA |
Gene summary |
Gene information | Gene symbol | NFYA | Gene ID | 4800 |
Gene name | nuclear transcription factor Y subunit alpha | |
Synonyms | CBF-A|CBF-B|HAP2|NF-YA | |
Cytomap | 6p21.1 | |
Type of gene | protein-coding | |
Description | nuclear transcription factor Y subunit alphaCAAT-box DNA binding protein subunit ACCAAT-binding transcription factor subunit BHAP2 CCAAT-binding proteinTranscription factor NF-Y, A subunitnuclear transcription factor Y subunit Anuclear transcription | |
Modification date | 20200327 | |
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 |
NFYA | GO:0006355 | regulation of transcription, DNA-templated | 15243141 |
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Gene structures and expression levels for NFYA |
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. |
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 NFYA |
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_185803 | chr6 | 41079029:41079164:41080811:41080897:41084046:41084192 | 41080811:41080897 |
exon_skip_202342 | chr6 | 41079044:41079164:41080811:41080897:41084046:41084192 | 41080811:41080897 |
exon_skip_281444 | chr6 | 41072983:41073084:41079029:41079164:41084046:41084192 | 41079029:41079164 |
exon_skip_74573 | chr6 | 41084046:41084192:41089579:41089710:41090204:41090309 | 41089579:41089710 |
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 NFYA |
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 |
ENST00000341376 | 41080811 | 41080897 | In-frame |
ENST00000341376 | 41089579 | 41089710 | 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 |
ENST00000341376 | 41080811 | 41080897 | 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 |
ENST00000341376 | 41080811 | 41080897 | In-frame |
ENST00000341376 | 41089579 | 41089710 | In-frame |
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Infer the effects of exon skipping event on protein functional features for NFYA |
p-ENSG00000001167_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 |
ENST00000341376 | 3828 | 347 | 41080811 | 41080897 | 278 | 363 | 25 | 54 |
ENST00000341376 | 3828 | 347 | 41089579 | 41089710 | 512 | 642 | 103 | 147 |
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 |
ENST00000341376 | 3828 | 347 | 41080811 | 41080897 | 278 | 363 | 25 | 54 |
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 |
ENST00000341376 | 3828 | 347 | 41080811 | 41080897 | 278 | 363 | 25 | 54 |
ENST00000341376 | 3828 | 347 | 41089579 | 41089710 | 512 | 642 | 103 | 147 |
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 |
P23511 | 25 | 54 | 26 | 54 | Alternative sequence | ID=VSP_000849;Note=In isoform Short. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
P23511 | 25 | 54 | 1 | 347 | Chain | ID=PRO_0000198768;Note=Nuclear transcription factor Y subunit alpha |
P23511 | 25 | 54 | 14 | 161 | Compositional bias | Note=Gln-rich |
P23511 | 103 | 147 | 1 | 347 | Chain | ID=PRO_0000198768;Note=Nuclear transcription factor Y subunit alpha |
P23511 | 103 | 147 | 14 | 161 | Compositional bias | Note=Gln-rich |
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 |
P23511 | 25 | 54 | 26 | 54 | Alternative sequence | ID=VSP_000849;Note=In isoform Short. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
P23511 | 25 | 54 | 1 | 347 | Chain | ID=PRO_0000198768;Note=Nuclear transcription factor Y subunit alpha |
P23511 | 25 | 54 | 14 | 161 | Compositional bias | Note=Gln-rich |
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 |
P23511 | 25 | 54 | 26 | 54 | Alternative sequence | ID=VSP_000849;Note=In isoform Short. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334;Dbxref=PMID:15489334 |
P23511 | 25 | 54 | 1 | 347 | Chain | ID=PRO_0000198768;Note=Nuclear transcription factor Y subunit alpha |
P23511 | 25 | 54 | 14 | 161 | Compositional bias | Note=Gln-rich |
P23511 | 103 | 147 | 1 | 347 | Chain | ID=PRO_0000198768;Note=Nuclear transcription factor Y subunit alpha |
P23511 | 103 | 147 | 14 | 161 | Compositional bias | Note=Gln-rich |
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3'-UTR located exon skipping events that lost miRNA binding sites in NFYA |
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 NFYA |
- 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 NFYA |
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 NFYA |
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 NFYA |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for NFYA |
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 NFYA |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |