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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 GPM6B |
Gene summary |
Gene information | Gene symbol | GPM6B | Gene ID | 2824 |
Gene name | glycoprotein M6B | |
Synonyms | M6B | |
Cytomap | Xp22.2 | |
Type of gene | protein-coding | |
Description | neuronal membrane glycoprotein M6-bprotolipid M6B | |
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 |
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Gene structures and expression levels for GPM6B |
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 |
PG | UP | ENST00000398361.7 | GPM6B-204:protein_coding:GPM6B | 3.345348e+02 | 8.525277e-01 | 2.535646e-03 | 2.828122e-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 GPM6B |
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_197573 | chrX | 13785750:13785808:13807650:13807769:13816844:13817069 | 13807650:13807769 |
exon_skip_208653 | chrX | 13779908:13779989:13783365:13783521:13785622:13785808 | 13783365:13783521 |
exon_skip_210863 | chrX | 13772854:13773030:13776238:13776303:13777352:13777425 | 13776238:13776303 |
exon_skip_226307 | chrX | 13777352:13777425:13779818:13779989:13783365:13783505 | 13779818:13779989 |
exon_skip_265526 | chrX | 13783449:13783521:13785622:13785808:13816844:13816869 | 13785622:13785808 |
exon_skip_267510 | chrX | 13785622:13785808:13807650:13807769:13816844:13816869 | 13807650:13807769 |
exon_skip_35597 | chrX | 13783449:13783521:13785622:13785808:13938507:13938638 | 13785622:13785808 |
exon_skip_58104 | chrX | 13807650:13807769:13812871:13812908:13816844:13816869 | 13812871:13812908 |
exon_skip_73313 | chrX | 13777352:13777425:13779818:13779989:13783365:13783521 | 13779818:13779989 |
exon_skip_81517 | chrX | 13785622:13785808:13807650:13807769:13816844:13817069 | 13807650:13807769 |
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 GPM6B |
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 |
ENST00000356942 | 13779818 | 13779989 | Frame-shift |
ENST00000356942 | 13783365 | 13783521 | 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 |
ENST00000356942 | 13779818 | 13779989 | Frame-shift |
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 |
ENST00000356942 | 13779818 | 13779989 | Frame-shift |
ENST00000356942 | 13783365 | 13783521 | Frame-shift |
ENST00000356942 | 13785622 | 13785808 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for GPM6B |
p-ENSG00000046653_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 GPM6B |
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 GPM6B |
- 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 GPM6B |
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 GPM6B |
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 GPM6B |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
TC | RBFOX2 | exon_skip_209628 | -7.117300e-01 | 1.502434e-25 |
TC | ELAVL4 | exon_skip_209628 | -7.699353e-01 | 4.762309e-32 |
TC | KHDRBS2 | exon_skip_209628 | -7.145460e-01 | 7.944007e-26 |
TC | HNRNPA0 | exon_skip_209628 | -5.138154e-01 | 5.896699e-12 |
TC | PUM1 | exon_skip_209628 | -5.434915e-01 | 1.909326e-13 |
TC | NUP42 | exon_skip_209628 | -5.452728e-01 | 1.537262e-13 |
TC | RALYL | exon_skip_209628 | -7.980300e-01 | 6.441463e-36 |
TC | PTBP1 | exon_skip_209628 | 4.505827e-01 | 3.191653e-09 |
TC | ESRP1 | exon_skip_209628 | -5.079145e-01 | 1.122007e-11 |
TC | NOVA1 | exon_skip_209628 | -4.946742e-01 | 4.547177e-11 |
TC | KHDRBS2 | exon_skip_202070 | -5.145525e-01 | 6.360264e-12 |
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RelatedDrugs for GPM6B |
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 GPM6B |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |