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![]() | Open reading frame (ORF) annotation in the exon skipping event |
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![]() | 3'-UTR located exon skipping events lost miRNA binding sites |
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![]() | Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
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Gene summary for LSM14B |
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Gene information | Gene symbol | LSM14B | Gene ID | 149986 |
Gene name | LSM family member 14B | |
Synonyms | C20orf40|FAM61B|FT005|LSM13|RAP55B|bA11M20.3 | |
Cytomap | 20q13.33 | |
Type of gene | protein-coding | |
Description | protein LSM14 homolog BLSM14 homolog BLSM14B, SCD6 homolog BRNA-associated protein 55Bfamily with sequence similarity 61, member BhRAP55B | |
Modification date | 20200327 | |
UniProtAcc | ||
Context |
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Gene | GO ID | GO term | PubMed ID |
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Gene structures and expression levels for LSM14B |
![]() * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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Tissue type | DEG direction | Base mean exp. | log2FC(AD/control) | P-value | Adj. p-value |
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Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for LSM14B |
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Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
exon_skip_111110 | chr20 | 62129785:62129952:62130219:62130296:62130530:62130605 | 62130219:62130296 |
exon_skip_119777 | chr20 | 62124617:62124780:62126304:62126439:62127585:62127701 | 62126304:62126439 |
exon_skip_137891 | chr20 | 62126340:62126439:62127585:62127701:62129785:62129952 | 62127585:62127701 |
exon_skip_147370 | chr20 | 62126304:62126439:62129785:62129952:62130219:62130296 | 62129785:62129952 |
exon_skip_168642 | chr20 | 62131356:62131506:62133290:62133475:62134163:62135374 | 62133290:62133475 |
exon_skip_195124 | chr20 | 62129809:62129952:62130219:62130296:62130530:62130605 | 62130219:62130296 |
exon_skip_208669 | chr20 | 62124617:62124780:62126304:62126439:62129785:62129952 | 62126304:62126439 |
exon_skip_212817 | chr20 | 62127585:62127701:62129785:62129952:62130219:62130296 | 62129785:62129952 |
exon_skip_235791 | chr20 | 62127590:62127701:62129785:62129952:62130219:62130296 | 62129785:62129952 |
exon_skip_257549 | chr20 | 62126340:62126439:62129785:62129952:62130219:62130296 | 62129785:62129952 |
exon_skip_284214 | chr20 | 62126304:62126439:62127585:62127701:62129785:62129952 | 62127585:62127701 |
exon_skip_35540 | chr20 | 62124617:62124780:62126226:62126439:62129785:62129952 | 62126226:62126439 |
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Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
exon_skip_137891 | ROSMAP_DLPFC | 5.914218e-01 | 7.013913e-01 | -1.099695e-01 | 2.659928e-04 |
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Open reading frame (ORF) annotation in the exon skipping event for LSM14B |
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ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000279068 | 62133290 | 62133475 | 3UTR-3CDS |
ENST00000279068 | 62126304 | 62126439 | Frame-shift |
ENST00000279068 | 62129785 | 62129952 | In-frame |
ENST00000279068 | 62130219 | 62130296 | In-frame |
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ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000279068 | 62129785 | 62129952 | In-frame |
ENST00000279068 | 62130219 | 62130296 | In-frame |
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ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000279068 | 62126304 | 62126439 | Frame-shift |
ENST00000279068 | 62129785 | 62129952 | In-frame |
ENST00000279068 | 62130219 | 62130296 | In-frame |
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Infer the effects of exon skipping event on protein functional features for LSM14B |
p-ENSG00000149657_img4.png![]() |
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ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
ENST00000279068 | 2565 | 385 | 62129785 | 62129952 | 589 | 755 | 143 | 198 |
ENST00000279068 | 2565 | 385 | 62130219 | 62130296 | 757 | 833 | 199 | 224 |
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ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
ENST00000279068 | 2565 | 385 | 62129785 | 62129952 | 589 | 755 | 143 | 198 |
ENST00000279068 | 2565 | 385 | 62130219 | 62130296 | 757 | 833 | 199 | 224 |
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ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
ENST00000279068 | 2565 | 385 | 62129785 | 62129952 | 589 | 755 | 143 | 198 |
ENST00000279068 | 2565 | 385 | 62130219 | 62130296 | 757 | 833 | 199 | 224 |
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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 |
Q9BX40 | 143 | 198 | 143 | 220 | Alternative sequence | ID=VSP_014660;Note=In isoform 2. GAGFPSIPVGKSPMVEQAVQTGSADNLNAKKLLPGKGTTGTQLNGRQAQPSSKTASDVVQPAAVQAQGQVNDENRRPQ->EKLVSPPASAAASSPSSSPSPQPVSELDLSSEPQQLTAKGNSSLGELHAVLQTILRARGKAADRMTVAVADHLPSPCS;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334; |
Q9BX40 | 143 | 198 | 2 | 385 | Chain | ID=PRO_0000187093;Note=Protein LSM14 homolog B |
Q9BX40 | 143 | 198 | 154 | 154 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:20068231;Dbxref=PMID:18669648,PMID:20068231 |
Q9BX40 | 143 | 198 | 165 | 165 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163 |
Q9BX40 | 199 | 224 | 143 | 220 | Alternative sequence | ID=VSP_014660;Note=In isoform 2. GAGFPSIPVGKSPMVEQAVQTGSADNLNAKKLLPGKGTTGTQLNGRQAQPSSKTASDVVQPAAVQAQGQVNDENRRPQ->EKLVSPPASAAASSPSSSPSPQPVSELDLSSEPQQLTAKGNSSLGELHAVLQTILRARGKAADRMTVAVADHLPSPCS;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334; |
Q9BX40 | 199 | 224 | 2 | 385 | Chain | ID=PRO_0000187093;Note=Protein LSM14 homolog B |
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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 |
Q9BX40 | 143 | 198 | 143 | 220 | Alternative sequence | ID=VSP_014660;Note=In isoform 2. GAGFPSIPVGKSPMVEQAVQTGSADNLNAKKLLPGKGTTGTQLNGRQAQPSSKTASDVVQPAAVQAQGQVNDENRRPQ->EKLVSPPASAAASSPSSSPSPQPVSELDLSSEPQQLTAKGNSSLGELHAVLQTILRARGKAADRMTVAVADHLPSPCS;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334; |
Q9BX40 | 143 | 198 | 2 | 385 | Chain | ID=PRO_0000187093;Note=Protein LSM14 homolog B |
Q9BX40 | 143 | 198 | 154 | 154 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:20068231;Dbxref=PMID:18669648,PMID:20068231 |
Q9BX40 | 143 | 198 | 165 | 165 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163 |
Q9BX40 | 199 | 224 | 143 | 220 | Alternative sequence | ID=VSP_014660;Note=In isoform 2. GAGFPSIPVGKSPMVEQAVQTGSADNLNAKKLLPGKGTTGTQLNGRQAQPSSKTASDVVQPAAVQAQGQVNDENRRPQ->EKLVSPPASAAASSPSSSPSPQPVSELDLSSEPQQLTAKGNSSLGELHAVLQTILRARGKAADRMTVAVADHLPSPCS;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334; |
Q9BX40 | 199 | 224 | 2 | 385 | Chain | ID=PRO_0000187093;Note=Protein LSM14 homolog B |
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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 |
Q9BX40 | 143 | 198 | 143 | 220 | Alternative sequence | ID=VSP_014660;Note=In isoform 2. GAGFPSIPVGKSPMVEQAVQTGSADNLNAKKLLPGKGTTGTQLNGRQAQPSSKTASDVVQPAAVQAQGQVNDENRRPQ->EKLVSPPASAAASSPSSSPSPQPVSELDLSSEPQQLTAKGNSSLGELHAVLQTILRARGKAADRMTVAVADHLPSPCS;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334; |
Q9BX40 | 143 | 198 | 2 | 385 | Chain | ID=PRO_0000187093;Note=Protein LSM14 homolog B |
Q9BX40 | 143 | 198 | 154 | 154 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:20068231;Dbxref=PMID:18669648,PMID:20068231 |
Q9BX40 | 143 | 198 | 165 | 165 | Modified residue | Note=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163 |
Q9BX40 | 199 | 224 | 143 | 220 | Alternative sequence | ID=VSP_014660;Note=In isoform 2. GAGFPSIPVGKSPMVEQAVQTGSADNLNAKKLLPGKGTTGTQLNGRQAQPSSKTASDVVQPAAVQAQGQVNDENRRPQ->EKLVSPPASAAASSPSSSPSPQPVSELDLSSEPQQLTAKGNSSLGELHAVLQTILRARGKAADRMTVAVADHLPSPCS;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:15489334; |
Q9BX40 | 199 | 224 | 2 | 385 | Chain | ID=PRO_0000187093;Note=Protein LSM14 homolog B |
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3'-UTR located exon skipping events that lost miRNA binding sites in LSM14B |
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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 LSM14B |
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Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
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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 LSM14B |
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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 LSM14B |
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Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
DLPFC | exon_skip_257549 | rs6587299 | chr20:62223256 | 2.706876e-04 | 1.980573e-02 |
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Correlation with RNA binding proteins (RBPs) for LSM14B |
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Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | SRSF4 | exon_skip_19997 | 4.013179e-01 | 4.219083e-06 |
CB | RBM45 | exon_skip_119777 | 4.630178e-01 | 7.982757e-10 |
CB | RBM45 | exon_skip_1714 | 4.319561e-01 | 2.320681e-07 |
CB | PCBP2 | exon_skip_137891 | 4.108870e-01 | 7.460341e-08 |
CB | NOVA1 | exon_skip_137891 | 4.342652e-01 | 1.071548e-08 |
CB | NUP42 | exon_skip_220468 | 4.344005e-01 | 1.264487e-07 |
CB | RALYL | exon_skip_220468 | 4.423805e-01 | 6.958339e-08 |
CB | PCBP1 | exon_skip_257549 | -4.046813e-01 | 3.778898e-06 |
CB | PCBP4 | exon_skip_257549 | 4.723363e-01 | 3.957489e-08 |
CB | TRA2A | exon_skip_257549 | -5.215196e-01 | 7.304878e-10 |
CB | NUP42 | exon_skip_257549 | 4.538118e-01 | 1.523365e-07 |
CB | PCBP4 | exon_skip_11023 | 4.569464e-01 | 2.847380e-07 |
CB | TRA2A | exon_skip_11023 | -5.128438e-01 | 4.635143e-09 |
CB | NUP42 | exon_skip_11023 | 5.181678e-01 | 3.008863e-09 |
CB | TARDBP | exon_skip_235791 | -4.550784e-01 | 1.675386e-09 |
CB | PCBP1 | exon_skip_235791 | -4.416441e-01 | 5.629612e-09 |
CB | PCBP4 | exon_skip_235791 | 6.147718e-01 | 6.695663e-18 |
CB | TRA2A | exon_skip_235791 | -5.089112e-01 | 7.418592e-12 |
CB | NUP42 | exon_skip_235791 | 4.735963e-01 | 2.885063e-10 |
FL | SRSF2 | exon_skip_137891 | 4.018534e-01 | 4.536707e-07 |
FL | ILF2 | exon_skip_137891 | 4.730717e-01 | 1.442409e-09 |
FL | HNRNPK | exon_skip_137891 | 4.351057e-01 | 3.645579e-08 |
HCC | ZNF638 | exon_skip_137891 | -4.630523e-01 | 7.335940e-16 |
HCC | RBM6 | exon_skip_137891 | -6.128083e-01 | 1.948059e-29 |
HCC | SRSF11 | exon_skip_137891 | -5.128822e-01 | 1.190567e-19 |
HCC | HNRNPA2B1 | exon_skip_137891 | -4.547360e-01 | 2.753964e-15 |
HCC | EIF4G2 | exon_skip_137891 | -5.227966e-01 | 1.757964e-20 |
HCC | HNRNPF | exon_skip_137891 | -6.494998e-01 | 5.579404e-34 |
IFG | IGF2BP2 | exon_skip_137891 | -4.000000e-01 | 3.493947e-02 |
PCC | HNRNPF | exon_skip_137891 | -5.201495e-01 | 5.916194e-16 |
STG | ILF2 | exon_skip_137891 | 4.188276e-01 | 4.653545e-04 |
TC | SRSF2 | exon_skip_137891 | 5.351368e-01 | 4.369672e-13 |
TC | MBNL1 | exon_skip_137891 | 4.177818e-01 | 4.718447e-08 |
TC | ILF2 | exon_skip_137891 | 5.466734e-01 | 1.081161e-13 |
TC | EIF4G2 | exon_skip_137891 | 4.026273e-01 | 1.567488e-07 |
TC | PTBP3 | exon_skip_137891 | 4.533406e-01 | 2.211964e-09 |
TC | NOVA1 | exon_skip_137891 | 7.031436e-01 | 7.097175e-25 |
TC | RBFOX2 | exon_skip_79104 | 4.340702e-01 | 1.674797e-08 |
TC | MSI1 | exon_skip_79104 | -4.004663e-01 | 2.428325e-07 |
TC | RBM6 | exon_skip_79104 | -4.618158e-01 | 1.462621e-09 |
TC | KHDRBS2 | exon_skip_79104 | 4.762158e-01 | 3.776762e-10 |
TC | HNRNPA0 | exon_skip_79104 | 4.145661e-01 | 8.192782e-08 |
TC | NUP42 | exon_skip_79104 | 4.162401e-01 | 7.177138e-08 |
TC | RALYL | exon_skip_79104 | 4.398760e-01 | 1.023703e-08 |
TC | HNRNPH2 | exon_skip_79104 | 4.214231e-01 | 4.742345e-08 |
TC | NOVA1 | exon_skip_79104 | 5.577649e-01 | 4.734804e-14 |
TC | NOVA1 | exon_skip_257549 | 4.302861e-01 | 3.893038e-08 |
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RelatedDrugs for LSM14B |
![]() (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 LSM14B |
![]() (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |