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| Open reading frame (ORF) annotation in the exon skipping event |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
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Gene summary for SPP1 |
 Gene summary |
| Gene information | Gene symbol | SPP1 | Gene ID | 6696 |
| Gene name | secreted phosphoprotein 1 | |
| Synonyms | BNSP|BSPI|ETA-1|OPN | |
| Cytomap | 4q22.1 | |
| Type of gene | protein-coding | |
| Description | osteopontinSPP1/CALPHA1 fusionearly T-lymphocyte activation 1nephropontinosteopontin/immunoglobulin alpha 1 heavy chain constant region fusion proteinsecreted phosphoprotein 1 (osteopontin, bone sialoprotein I, early T-lymphocyte activation 1)secret | |
| Modification date | 20180523 | |
| UniProtAcc | P10451 | |
| Context | PubMed: SPP1 [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract] - Title (PMID) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| SPP1 | GO:0006710 | androgen catabolic process | 26482249 |
| SPP1 | GO:0033280 | response to vitamin D | 16720713 |
| SPP1 | GO:0045893 | positive regulation of transcription, DNA-templated | 26482249 |
| SPP1 | GO:0071394 | cellular response to testosterone stimulus | 26482249 |
| SPP1 | GO:2000866 | positive regulation of estradiol secretion | 26482249 |
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Exon skipping events across known transcript of Ensembl for SPP1 from UCSC genome browser |
| Skipped exons in TCGA and GTEx 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. |
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Gene isoform structures and expression levels for SPP1 |
| Expression levels of gene isoforms across TCGA. |
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| Expression levels of gene isoforms across GTEx. |
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Exon skipping events with PSIs in TCGA for SPP1 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_424897 | 4 | 88896868:88896952:88898033:88898101:88898210:88898249 | 88898033:88898101 | ENSG00000118785.9 | ENST00000504310.1,ENST00000508233.1,ENST00000360804.4,ENST00000509659.1,ENST00000509334.1,ENST00000395080.3,ENST00000513981.1,ENST00000508002.1 |
| exon_skip_424904 | 4 | 88898033:88898101:88898210:88898249:88901197:88901278 | 88898210:88898249 | ENSG00000118785.9 | ENST00000237623.7,ENST00000505146.1,ENST00000395080.3,ENST00000508002.1 |
| exon_skip_424910 | 4 | 88898219:88898249:88898813:88899002:88901197:88901278 | 88898813:88899002 | ENSG00000118785.9 | ENST00000509659.1 |
| exon_skip_424913 | 4 | 88898219:88898249:88898813:88899011:88901197:88901278 | 88898813:88899011 | ENSG00000118785.9 | ENST00000509334.1,ENST00000513981.1 |
| exon_skip_424924 | 4 | 88898219:88898249:88901197:88901278:88901544:88901586 | 88901197:88901278 | ENSG00000118785.9 | ENST00000395080.3,ENST00000508002.1 |
| exon_skip_424926 | 4 | 88898210:88898249:88901197:88901278:88902626:88902740 | 88901197:88901278 | ENSG00000118785.9 | ENST00000237623.7 |
| exon_skip_424932 | 4 | 88898210:88898249:88901544:88901586:88902626:88902740 | 88901544:88901586 | ENSG00000118785.9 | ENST00000360804.4 |
| exon_skip_424934 | 4 | 88901197:88901278:88901544:88901586:88902626:88902740 | 88901544:88901586 | ENSG00000118785.9 | ENST00000509659.1,ENST00000395080.3,ENST00000513981.1 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for SPP1 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_424897 | 4 | 88896868:88896952:88898033:88898101:88898210:88898249 | 88898033:88898101 | ENSG00000118785.9 | ENST00000395080.3,ENST00000504310.1,ENST00000513981.1,ENST00000509334.1,ENST00000508233.1,ENST00000360804.4,ENST00000509659.1,ENST00000508002.1 |
| exon_skip_424904 | 4 | 88898033:88898101:88898210:88898249:88901197:88901278 | 88898210:88898249 | ENSG00000118785.9 | ENST00000237623.7,ENST00000395080.3,ENST00000508002.1,ENST00000505146.1 |
| exon_skip_424910 | 4 | 88898219:88898249:88898813:88899002:88901197:88901278 | 88898813:88899002 | ENSG00000118785.9 | ENST00000509659.1 |
| exon_skip_424913 | 4 | 88898219:88898249:88898813:88899011:88901197:88901278 | 88898813:88899011 | ENSG00000118785.9 | ENST00000513981.1,ENST00000509334.1 |
| exon_skip_424924 | 4 | 88898219:88898249:88901197:88901278:88901544:88901586 | 88901197:88901278 | ENSG00000118785.9 | ENST00000395080.3,ENST00000508002.1 |
| exon_skip_424926 | 4 | 88898210:88898249:88901197:88901278:88902626:88902740 | 88901197:88901278 | ENSG00000118785.9 | ENST00000237623.7 |
| exon_skip_424932 | 4 | 88898210:88898249:88901544:88901586:88902626:88902740 | 88901544:88901586 | ENSG00000118785.9 | ENST00000360804.4 |
| exon_skip_424934 | 4 | 88901197:88901278:88901544:88901586:88902626:88902740 | 88901544:88901586 | ENSG00000118785.9 | ENST00000395080.3,ENST00000513981.1,ENST00000509659.1 |
| PSI values of skipped exons in GTEx. |
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| * Skipped exon sequences. |
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Open reading frame (ORF) annotation in the exon skipping event for SPP1 |
| Open reading frame (ORF) of individual exon skipping events in TCGA based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000395080 | 88898033 | 88898101 | 5CDS-5UTR |
| ENST00000395080 | 88898210 | 88898249 | In-frame |
| ENST00000395080 | 88901197 | 88901278 | In-frame |
| ENST00000395080 | 88901544 | 88901586 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000395080 | 88898033 | 88898101 | 5CDS-5UTR |
| ENST00000395080 | 88898210 | 88898249 | In-frame |
| ENST00000395080 | 88901197 | 88901278 | In-frame |
| ENST00000395080 | 88901544 | 88901586 | In-frame |
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Infer the effects of exon skipping event on protein functional features for SPP1 |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
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| Loci of skipped exons in TCGA 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 |
| ENST00000395080 | 1490 | 314 | 88898210 | 88898249 | 182 | 220 | 18 | 31 |
| ENST00000395080 | 1490 | 314 | 88901197 | 88901278 | 221 | 301 | 31 | 58 |
| ENST00000395080 | 1490 | 314 | 88901544 | 88901586 | 302 | 343 | 58 | 72 |
| Loci of skipped exons in GTEx 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 |
| ENST00000395080 | 1490 | 314 | 88898210 | 88898249 | 182 | 220 | 18 | 31 |
| ENST00000395080 | 1490 | 314 | 88901197 | 88901278 | 221 | 301 | 31 | 58 |
| ENST00000395080 | 1490 | 314 | 88901544 | 88901586 | 302 | 343 | 58 | 72 |
| Lost protein functional features of individual exon skipping events in TCGA. |
| 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 GTEx. |
| 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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SNVs in the skipped exons for SPP1 |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
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| - Differential PSIs between mutated versus non-mutated samples. |
| - Non-synonymous mutations located in the skipped exons in TCGA. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| CESC | TCGA-UC-A7PF-01 | exon_skip_424932 exon_skip_424934 | 88901545 | 88901586 | 88901544 | 88901544 | Splice_Site | G | C | e4-1 |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
| - 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 |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 88901545 | 88901586 | 88901567 | 88901568 | Frame_Shift_Del | CC | - | p.T66fs |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 88901545 | 88901586 | 88901569 | 88901570 | Frame_Shift_Ins | - | GG | p.N67fs |
| NCIH2172_LUNG | 88898034 | 88898101 | 88898094 | 88898094 | Missense_Mutation | C | A | p.A16D |
| U937_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 88898034 | 88898101 | 88898097 | 88898097 | Missense_Mutation | T | C | p.I17T |
| TUR_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 88898034 | 88898101 | 88898097 | 88898097 | Missense_Mutation | T | C | p.I17T |
| TE4_OESOPHAGUS | 88901198 | 88901278 | 88901220 | 88901220 | Missense_Mutation | C | A | p.A39D |
| HCC2998_LARGE_INTESTINE | 88901198 | 88901278 | 88901264 | 88901264 | Missense_Mutation | C | A | p.L54I |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for SPP1 |
| sQTL information located at the skipped exons. |
| Exon skip ID | Chromosome | Three exons | Skippped exon | ENST | Cancer type | SNP id | Location | DNA change (ref/var) | P-value |
| exon_skip_424910 | 4 | 88898219:88898249:88898813:88899002:88901197:88901278 | 88898813:88899002 | ENST00000509659.1 | BRCA | rs11728697 | chr4:88898941 | C/T | 2.02e-03 |
| exon_skip_424910 | 4 | 88898219:88898249:88898813:88899002:88901197:88901278 | 88898813:88899002 | ENST00000509659.1 | KIRC | rs11728697 | chr4:88898941 | C/T | 2.75e-03 |
| exon_skip_424913 | 4 | 88898219:88898249:88898813:88899011:88901197:88901278 | 88898813:88899011 | ENST00000509334.1,ENST00000513981.1 | BRCA | rs11728697 | chr4:88898941 | C/T | 2.02e-03 |
| exon_skip_424913 | 4 | 88898219:88898249:88898813:88899011:88901197:88901278 | 88898813:88899011 | ENST00000509334.1,ENST00000513981.1 | KIRC | rs11728697 | chr4:88898941 | C/T | 2.75e-03 |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for SPP1 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for SPP1 |
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RelatedDrugs for SPP1 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for SPP1 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| SPP1 | C0001418 | Adenocarcinoma | 2 | CTD_human |
| SPP1 | C0003949 | Asbestosis | 2 | CTD_human |
| SPP1 | C0006663 | Calcinosis | 2 | CTD_human |
| SPP1 | C0022650 | Kidney Calculi | 2 | CTD_human |
| SPP1 | C0024121 | Lung Neoplasms | 2 | CTD_human |
| SPP1 | C0025500 | Mesothelioma | 2 | CTD_human |
| SPP1 | C1458155 | Mammary Neoplasms | 2 | CTD_human |
| SPP1 | C2609414 | Acute kidney injury | 2 | CTD_human |
| SPP1 | C0006118 | Brain Neoplasms | 1 | CTD_human |
| SPP1 | C0017638 | Glioma | 1 | CTD_human |
| SPP1 | C0017668 | Focal glomerulosclerosis | 1 | CTD_human |
| SPP1 | C0018799 | Heart Diseases | 1 | CTD_human |
| SPP1 | C0018824 | Heart valve disease | 1 | CTD_human |
| SPP1 | C0020517 | Hypersensitivity | 1 | CTD_human |
| SPP1 | C0022658 | Kidney Diseases | 1 | CTD_human |
| SPP1 | C0023890 | Liver Cirrhosis | 1 | CTD_human |
| SPP1 | C0023896 | Alcoholic Liver Diseases | 1 | CTD_human |
| SPP1 | C0023904 | Liver Neoplasms, Experimental | 1 | CTD_human |
| SPP1 | C0024668 | Mammary Neoplasms, Experimental | 1 | CTD_human |
| SPP1 | C0027627 | Neoplasm Metastasis | 1 | CTD_human |
| SPP1 | C0027659 | Neoplasms, Experimental | 1 | CTD_human |
| SPP1 | C0030286 | Pancreatic Diseases | 1 | CTD_human |
| SPP1 | C0032229 | Pleural Neoplasms | 1 | CTD_human |
| SPP1 | C0032285 | Pneumonia | 1 | CTD_human |
| SPP1 | C0033687 | Proteinuria | 1 | CTD_human |
| SPP1 | C0034069 | Pulmonary Fibrosis | 1 | CTD_human |
| SPP1 | C0041755 | Adverse reaction to drug | 1 | CTD_human |
| SPP1 | C0041948 | Uremia | 1 | CTD_human |
| SPP1 | C0162820 | Dermatitis, Allergic Contact | 1 | CTD_human |
| SPP1 | C0221204 | Lytic lesion | 1 | CTD_human |
| SPP1 | C0270612 | Leukoencephalopathies | 1 | CTD_human |
| SPP1 | C0853897 | Diabetic Cardiomyopathies | 1 | CTD_human |
| SPP1 | C2937358 | Cerebral Hemorrhage | 1 | CTD_human |
| SPP1 | C4277682 | Chemical and Drug Induced Liver Injury | 1 | CTD_human |
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