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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 ST8SIA3 |
Gene summary |
Gene information | Gene symbol | ST8SIA3 | Gene ID | 51046 |
Gene name | ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 3 | |
Synonyms | SIAT8C|ST8SiaIII | |
Cytomap | 18q21.31 | |
Type of gene | protein-coding | |
Description | sia-alpha-2,3-Gal-beta-1,4-GlcNAc-R:alpha 2,8-sialyltransferaseSIAT8-CST8 alpha-N-acetylneuraminate alpha-2,8-sialyltransferase 3alpha-2,8-sialyltransferase 8Calpha-2,8-sialyltransferase IIIsialyltransferase 8C (alpha2,3Galbeta1,4GlcNAcalpha 2,8-sial | |
Modification date | 20200313 | |
UniProtAcc | K7EQB3, O43173, | |
Context |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
ST8SIA3 | GO:0001574 | ganglioside biosynthetic process | 10766765 |
ST8SIA3 | GO:0006486 | protein glycosylation | 10766765 |
ST8SIA3 | GO:0006491 | N-glycan processing | 10766765|26192331 |
ST8SIA3 | GO:0009100 | glycoprotein metabolic process | 9826427|10766765 |
ST8SIA3 | GO:0009311 | oligosaccharide metabolic process | 10766765 |
ST8SIA3 | GO:1990743 | protein sialylation | 26192331 |
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Gene structures and expression levels for ST8SIA3 |
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 |
PCC | UP | ENST00000590600.1 | ST8SIA3-203:lncRNA:ST8SIA3 | 2.662954e+01 | 1.692504e+00 | 1.635914e-04 | 8.180231e-03 |
HCC | UP | ENST00000590600.1 | ST8SIA3-203:lncRNA:ST8SIA3 | 2.053645e+01 | 1.364198e+00 | 5.938834e-05 | 4.903578e-03 |
CB | DOWN | ENST00000590600.1 | ST8SIA3-203:lncRNA:ST8SIA3 | 3.078796e+02 | -1.229740e+00 | 1.710843e-08 | 4.763246e-07 |
CB | DOWN | ENST00000586360.1 | ST8SIA3-202:protein_coding:ST8SIA3 | 1.034032e+00 | -1.190076e+00 | 5.573997e-04 | 3.160571e-03 |
TC | DOWN | ENST00000586360.1 | ST8SIA3-202:protein_coding:ST8SIA3 | 7.774047e-01 | -1.207241e+00 | 1.158454e-03 | 1.107671e-02 |
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 ST8SIA3 |
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_291922 | chr18 | 57354402:57354524:57356913:57357470:57359995:57368931 | 57356913:57357470 |
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 ST8SIA3 |
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 |
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 |
ENST00000324000 | 57356913 | 57357470 | In-frame |
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Infer the effects of exon skipping event on protein functional features for ST8SIA3 |
p-ENSG00000177511_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 |
ENST00000324000 | 11850 | 380 | 57356913 | 57357470 | 2338 | 2894 | 101 | 286 |
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 |
O43173 | 101 | 286 | 159 | 165 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 183 | 189 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 206 | 209 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 242 | 244 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 274 | 276 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 190 | 190 | Binding site | Note=Substrate;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:26192331;Dbxref=PMID:26192331 |
O43173 | 101 | 286 | 1 | 380 | Chain | ID=PRO_0000149289;Note=Sia-alpha-2%2C3-Gal-beta-1%2C4-GlcNAc-R:alpha 2%2C8-sialyltransferase |
O43173 | 101 | 286 | 162 | 313 | Disulfide bond | Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000269;evidence=ECO:0000244|PDB:5BO6,ECO:0000244|PDB:5BO7,ECO:0000244|PDB:5BO8,ECO:0000244|PDB:5BO9,ECO:0000269|PubMed:26192331;Dbxref=PMID:26192331 |
O43173 | 101 | 286 | 176 | 379 | Disulfide bond | Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000269;evidence=ECO:0000244|PDB:5BO6,ECO:0000244|PDB:5BO7,ECO:0000244|PDB:5BO8,ECO:0000244|PDB:5BO9,ECO:0000269|PubMed:26192331;Dbxref=PMID:26192331 |
O43173 | 101 | 286 | 113 | 113 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:26192331;Dbxref=PMID:26192331 |
O43173 | 101 | 286 | 160 | 160 | Glycosylation | Note=N-linked (GlcNAc...) asparagine%3B atypical;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:26192331;Dbxref=PMID:26192331 |
O43173 | 101 | 286 | 206 | 206 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255,ECO:0000269;evidence=ECO:0000255,ECO:0000269|PubMed:26192331;Dbxref=PMID:26192331 |
O43173 | 101 | 286 | 94 | 107 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 110 | 113 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 118 | 120 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 142 | 146 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 169 | 171 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 177 | 181 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 195 | 197 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 198 | 201 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 214 | 218 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 220 | 222 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 225 | 236 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 251 | 253 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 254 | 266 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 282 | 291 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 211 | 213 | Region | Note=Substrate binding;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:26192331;Dbxref=PMID:26192331 |
O43173 | 101 | 286 | 173 | 174 | Sequence conflict | Note=GS->FI;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
O43173 | 101 | 286 | 178 | 178 | Sequence conflict | Note=Q->R;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
O43173 | 101 | 286 | 194 | 194 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
O43173 | 101 | 286 | 34 | 380 | Topological domain | Note=Lumenal;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
O43173 | 101 | 286 | 153 | 156 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 237 | 240 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
O43173 | 101 | 286 | 267 | 269 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5BO7 |
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3'-UTR located exon skipping events that lost miRNA binding sites in ST8SIA3 |
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 ST8SIA3 |
- 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 ST8SIA3 |
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 ST8SIA3 |
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 ST8SIA3 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | PCBP4 | exon_skip_34664 | 4.371469e-01 | 1.284006e-07 |
CB | NUP42 | exon_skip_34664 | 4.841145e-01 | 3.099085e-09 |
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RelatedDrugs for ST8SIA3 |
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 ST8SIA3 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |