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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 CALD1 |
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Gene information | Gene symbol | CALD1 | Gene ID | 800 |
Gene name | caldesmon 1 | |
Synonyms | CDM|H-CAD|HCAD|L-CAD|LCAD|NAG22 | |
Cytomap | 7q33 | |
Type of gene | protein-coding | |
Description | caldesmontestis secretory sperm-binding protein Li 227n | |
Modification date | 20200313 | |
UniProtAcc | ||
Context |
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Gene | GO ID | GO term | PubMed ID |
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Gene structures and expression levels for CALD1 |
![]() * 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 |
STG | UP | ENST00000361675.7 | CALD1-201:protein_coding:CALD1 | 7.961214e+01 | 1.707350e+00 | 6.593621e-06 | 2.097919e-03 |
STG | UP | ENST00000422748.5 | CALD1-205:protein_coding:CALD1 | 1.661274e+01 | 1.174241e+00 | 6.273744e-04 | 3.039496e-02 |
CB | UP | ENST00000422748.5 | CALD1-205:protein_coding:CALD1 | 2.689817e+01 | 9.854477e-01 | 4.831101e-07 | 8.079917e-06 |
CB | UP | ENST00000466704.1 | CALD1-214:lncRNA:CALD1 | 1.077654e+01 | 8.886747e-01 | 3.466286e-06 | 4.313079e-05 |
CB | UP | ENST00000480638.1 | CALD1-219:retained_intron:CALD1 | 4.635115e+00 | 8.935563e-01 | 3.910373e-05 | 3.338719e-04 |
TC | UP | ENST00000422748.5 | CALD1-205:protein_coding:CALD1 | 5.164042e+01 | 1.312279e+00 | 4.388580e-12 | 1.270896e-09 |
TC | UP | ENST00000466704.1 | CALD1-214:lncRNA:CALD1 | 1.818984e+01 | 1.130474e+00 | 7.133643e-10 | 9.913095e-08 |
TC | UP | ENST00000361901.6 | CALD1-202:protein_coding:CALD1 | 1.390451e+03 | 8.370005e-01 | 5.280360e-07 | 2.409904e-05 |
TC | UP | ENST00000436461.6 | CALD1-209:protein_coding:CALD1 | 1.786009e+00 | 2.144449e+00 | 7.742265e-03 | 4.636663e-02 |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for CALD1 |
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Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
exon_skip_114047 | chr7 | 134933879:134934077:134935688:134935765:134941092:134941237 | 134935688:134935765 |
exon_skip_1626 | chr7 | 134779715:134779749:134809591:134809627:134843884:134843971 | 134809591:134809627 |
exon_skip_191964 | chr7 | 134933837:134934077:134935688:134935765:134941092:134941237 | 134935688:134935765 |
exon_skip_214197 | chr7 | 134932988:134934077:134935688:134935765:134941092:134941237 | 134935688:134935765 |
exon_skip_227310 | chr7 | 134933194:134933390:134935688:134935765:134941092:134941237 | 134935688:134935765 |
exon_skip_240599 | chr7 | 134941182:134941237:134947508:134947769:134950374:134950514 | 134947508:134947769 |
exon_skip_269660 | chr7 | 134891610:134891673:134928754:134928900:134932988:134933123 | 134928754:134928900 |
exon_skip_51558 | chr7 | 134960533:134960628:134962820:134962934:134965306:134965386 | 134962820:134962934 |
exon_skip_62403 | chr7 | 134933194:134933390:134935688:134935765:134941092:134941108 | 134935688:134935765 |
exon_skip_89747 | chr7 | 134867693:134867804:134928049:134928090:134928754:134928900 | 134928049:134928090 |
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Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
exon_skip_51558 | MSBB_PG | 1.527407e-01 | 2.561538e-01 | -1.034131e-01 | 2.909178e-04 |
exon_skip_51558 | Mayo_TC | 1.456098e-01 | 2.651282e-01 | -1.195184e-01 | 5.340071e-07 |
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Open reading frame (ORF) annotation in the exon skipping event for CALD1 |
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ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000361675 | 134935688 | 134935765 | In-frame |
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ENST | Start of skipped exon | End of skipped exon | ORF |
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ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000361675 | 134947508 | 134947769 | Frame-shift |
ENST00000361675 | 134935688 | 134935765 | In-frame |
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Infer the effects of exon skipping event on protein functional features for CALD1 |
p-ENSG00000122786_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 |
ENST00000361675 | 3629 | 793 | 134935688 | 134935765 | 1539 | 1615 | 436 | 462 |
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ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
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ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
ENST00000361675 | 3629 | 793 | 134935688 | 134935765 | 1539 | 1615 | 436 | 462 |
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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 |
Q05682 | 436 | 462 | 208 | 462 | Alternative sequence | ID=VSP_004156;Note=In isoform 4 and isoform 5. Missing;Ontology_term=ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:1465449,ECO:0000303|PubMed:15489334,ECO:0000303|PubMed:1555769,ECO:0000303|PubMed:1885618;Dbxref=PMID:1465449, |
Q05682 | 436 | 462 | 208 | 436 | Alternative sequence | ID=VSP_004155;Note=In isoform 2%2C isoform 3 and isoform 6. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:1465449,ECO:0000303|PubMed:14702039;Dbxref=PMID:1465449,PMID:14702039 |
Q05682 | 436 | 462 | 1 | 793 | Chain | ID=PRO_0000089288;Note=Caldesmon |
Q05682 | 436 | 462 | 459 | 459 | Cross-link | Note=Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2);Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:28112733;Dbxref=PMID:28112733 |
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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 |
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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 |
Q05682 | 436 | 462 | 208 | 462 | Alternative sequence | ID=VSP_004156;Note=In isoform 4 and isoform 5. Missing;Ontology_term=ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:1465449,ECO:0000303|PubMed:15489334,ECO:0000303|PubMed:1555769,ECO:0000303|PubMed:1885618;Dbxref=PMID:1465449, |
Q05682 | 436 | 462 | 208 | 436 | Alternative sequence | ID=VSP_004155;Note=In isoform 2%2C isoform 3 and isoform 6. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:1465449,ECO:0000303|PubMed:14702039;Dbxref=PMID:1465449,PMID:14702039 |
Q05682 | 436 | 462 | 1 | 793 | Chain | ID=PRO_0000089288;Note=Caldesmon |
Q05682 | 436 | 462 | 459 | 459 | Cross-link | Note=Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2);Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:28112733;Dbxref=PMID:28112733 |
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3'-UTR located exon skipping events that lost miRNA binding sites in CALD1 |
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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 CALD1 |
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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 CALD1 |
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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 CALD1 |
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Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for CALD1 |
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Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | ELAVL4 | exon_skip_51558 | 4.478278e-01 | 3.638790e-09 |
CB | NUP42 | exon_skip_51558 | 6.185881e-01 | 4.680955e-18 |
CB | RALYL | exon_skip_51558 | 6.018473e-01 | 6.092633e-17 |
CB | PTBP3 | exon_skip_51558 | 4.060514e-01 | 1.201279e-07 |
DLPFC | ELAVL4 | exon_skip_51558 | 4.527211e-01 | 2.481785e-18 |
DLPFC | KHDRBS2 | exon_skip_51558 | 5.836023e-01 | 5.767826e-32 |
FL | ELAVL4 | exon_skip_51558 | 6.117096e-01 | 1.110488e-20 |
FL | ILF2 | exon_skip_51558 | 4.781848e-01 | 3.920633e-12 |
FL | KHDRBS2 | exon_skip_51558 | 4.209444e-01 | 1.798419e-09 |
FL | PUF60 | exon_skip_51558 | 4.176323e-01 | 2.478805e-09 |
FL | NUP42 | exon_skip_51558 | 4.010409e-01 | 1.174770e-08 |
FL | RALYL | exon_skip_51558 | 5.977877e-01 | 1.341573e-19 |
FL | PTBP1 | exon_skip_51558 | -4.140257e-01 | 3.501690e-09 |
FL | NOVA1 | exon_skip_51558 | 4.981669e-01 | 3.480167e-13 |
HCC | PTBP1 | exon_skip_51558 | -5.961609e-01 | 1.449173e-27 |
HCC | HNRNPF | exon_skip_51558 | -5.500147e-01 | 6.591563e-23 |
PCC | ELAVL4 | exon_skip_51558 | 4.526129e-01 | 2.960266e-12 |
PCC | PTBP1 | exon_skip_51558 | -6.760827e-01 | 4.503787e-30 |
PCC | HNRNPF | exon_skip_51558 | -5.909394e-01 | 1.240249e-21 |
PG | ELAVL4 | exon_skip_51558 | 6.791467e-01 | 1.222303e-26 |
PG | ILF2 | exon_skip_51558 | 5.703504e-01 | 1.583798e-17 |
PG | KHDRBS2 | exon_skip_51558 | 5.365637e-01 | 2.469371e-15 |
PG | PUF60 | exon_skip_51558 | 4.537138e-01 | 6.968054e-11 |
PG | NUP42 | exon_skip_51558 | 4.221280e-01 | 1.771956e-09 |
PG | RALYL | exon_skip_51558 | 6.332217e-01 | 2.381311e-22 |
PG | NOVA1 | exon_skip_51558 | 5.500963e-01 | 3.498376e-16 |
STG | ELAVL4 | exon_skip_51558 | 6.750266e-01 | 1.394602e-12 |
STG | ILF2 | exon_skip_51558 | 5.656072e-01 | 1.697365e-08 |
STG | KHDRBS2 | exon_skip_51558 | 5.596761e-01 | 2.570758e-08 |
STG | PUF60 | exon_skip_51558 | 4.856543e-01 | 2.461502e-06 |
STG | NUP42 | exon_skip_51558 | 5.712869e-01 | 1.131821e-08 |
STG | RALYL | exon_skip_51558 | 6.658782e-01 | 3.562427e-12 |
STG | PTBP3 | exon_skip_51558 | 5.108439e-01 | 5.875410e-07 |
STG | NOVA1 | exon_skip_51558 | 5.677502e-01 | 1.458008e-08 |
TC | ELAVL4 | exon_skip_51558 | 4.465275e-01 | 3.252193e-09 |
TC | ILF2 | exon_skip_51558 | 4.249382e-01 | 2.134896e-08 |
TC | KHDRBS2 | exon_skip_51558 | 4.507461e-01 | 2.216795e-09 |
TC | NUP42 | exon_skip_51558 | 4.485737e-01 | 2.702249e-09 |
TC | RALYL | exon_skip_51558 | 4.745830e-01 | 2.298365e-10 |
TC | PTBP1 | exon_skip_51558 | -4.391986e-01 | 6.251929e-09 |
TC | NOVA1 | exon_skip_51558 | 7.102203e-01 | 7.284210e-26 |
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RelatedDrugs for CALD1 |
![]() (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 CALD1 |
![]() (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |