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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 SLCO1A2 |
Gene summary |
Gene information | Gene symbol | SLCO1A2 | Gene ID | 6579 |
Gene name | solute carrier organic anion transporter family member 1A2 | |
Synonyms | OATP|OATP-A|OATP1A2|SLC21A3 | |
Cytomap | 12p12.1 | |
Type of gene | protein-coding | |
Description | solute carrier organic anion transporter family member 1A2OATP-1organic anion transporting polypeptide Aorganic anion-transporting polypeptide 1sodium-independent organic anion transportersolute carrier family 21 (organic anion transporter), member 3 | |
Modification date | 20200313 | |
UniProtAcc | A0A024RAT5, | |
Context | - 30682540(TDP-43 proteinopathy in aging: Associations with risk-associated gene variants and with brain parenchymal thyroid hormone levels) |
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 SLCO1A2 |
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 | ENST00000473830.5 | SLCO1A2-214:lncRNA:SLCO1A2 | 1.290121e+00 | 8.327963e-01 | 1.661386e-03 | 2.093050e-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 SLCO1A2 |
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_133496 | chr12 | 21306914:21306988:21314549:21314681:21318782:21318923 | 21314549:21314681 |
exon_skip_145582 | chr12 | 21306882:21306988:21318782:21318923:21334588:21334709 | 21318782:21318923 |
exon_skip_158507 | chr12 | 21314664:21314681:21318782:21318923:21334588:21334671 | 21318782:21318923 |
exon_skip_167048 | chr12 | 21301171:21301269:21304427:21304573:21306882:21306988 | 21304427:21304573 |
exon_skip_174457 | chr12 | 21274469:21274586:21275360:21275424:21292164:21292336 | 21275360:21275424 |
exon_skip_181665 | chr12 | 21306914:21306988:21314549:21314681:21334588:21334671 | 21314549:21314681 |
exon_skip_296314 | chr12 | 21318831:21318923:21319372:21319579:21324594:21324681 | 21319372:21319579 |
exon_skip_38211 | chr12 | 21314664:21314681:21318782:21318923:21324594:21324681 | 21318782:21318923 |
exon_skip_41387 | chr12 | 21318831:21318923:21319372:21319579:21334588:21334671 | 21319372:21319579 |
exon_skip_45634 | chr12 | 21306914:21306988:21318782:21318923:21334588:21334671 | 21318782:21318923 |
exon_skip_54973 | chr12 | 21304523:21304573:21306882:21306988:21314549:21314681 | 21306882:21306988 |
exon_skip_62609 | chr12 | 21304523:21304573:21306882:21306988:21318782:21318923 | 21306882:21306988 |
exon_skip_67865 | chr12 | 21306882:21306988:21314549:21314681:21334588:21334709 | 21314549:21314681 |
exon_skip_7852 | chr12 | 21314549:21314681:21318782:21318923:21334588:21334704 | 21318782:21318923 |
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 SLCO1A2 |
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 |
ENST00000307378 | 21275360 | 21275424 | Frame-shift |
ENST00000307378 | 21306882 | 21306988 | Frame-shift |
ENST00000307378 | 21314549 | 21314681 | Frame-shift |
ENST00000307378 | 21318782 | 21318923 | 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 |
ENST00000307378 | 21275360 | 21275424 | Frame-shift |
ENST00000307378 | 21306882 | 21306988 | Frame-shift |
ENST00000307378 | 21314549 | 21314681 | 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 |
ENST00000307378 | 21275360 | 21275424 | Frame-shift |
ENST00000307378 | 21306882 | 21306988 | Frame-shift |
ENST00000307378 | 21314549 | 21314681 | Frame-shift |
ENST00000307378 | 21318782 | 21318923 | Frame-shift |
ENST00000307378 | 21304427 | 21304573 | In-frame |
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Infer the effects of exon skipping event on protein functional features for SLCO1A2 |
p-ENSG00000084453_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 |
ENST00000307378 | 7699 | 670 | 21304427 | 21304573 | 1164 | 1309 | 147 | 196 |
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 |
P46721 | 147 | 196 | 1 | 670 | Chain | ID=PRO_0000191042;Note=Solute carrier organic anion transporter family member 1A2 |
P46721 | 147 | 196 | 172 | 172 | Natural variant | ID=VAR_020291;Note=E->D;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15632119;Dbxref=dbSNP:rs11568563,PMID:15632119 |
P46721 | 147 | 196 | 187 | 187 | Natural variant | ID=VAR_036823;Note=A->T;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15632119;Dbxref=dbSNP:rs750165758,PMID:15632119 |
P46721 | 147 | 196 | 112 | 155 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
P46721 | 147 | 196 | 185 | 203 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
P46721 | 147 | 196 | 156 | 184 | Transmembrane | Note=Helical%3B Name%3D4;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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3'-UTR located exon skipping events that lost miRNA binding sites in SLCO1A2 |
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 SLCO1A2 |
- 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 SLCO1A2 |
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 SLCO1A2 |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
CB | exon_skip_296314 | rs7313671 | chr12:21322918 | 3.092664e-04 | 4.146006e-02 |
CB | exon_skip_296314 | rs4148987 | chr12:21329547 | 3.092664e-04 | 4.146006e-02 |
CB | exon_skip_296314 | rs4148984 | chr12:21333262 | 3.092664e-04 | 4.146006e-02 |
TC | exon_skip_296314 | rs7313671 | chr12:21322918 | 1.667493e-07 | 6.873032e-05 |
TC | exon_skip_296314 | rs4148987 | chr12:21329547 | 1.667493e-07 | 6.873032e-05 |
TC | exon_skip_296314 | rs4148984 | chr12:21333262 | 1.667493e-07 | 6.873032e-05 |
TC | exon_skip_296314 | rs7967303 | chr12:21298682 | 1.786471e-06 | 5.715388e-04 |
TC | exon_skip_296314 | rs11045953 | chr12:21302117 | 1.786471e-06 | 5.715388e-04 |
TC | exon_skip_296314 | rs6487215 | chr12:21292057 | 1.786471e-06 | 5.715388e-04 |
TC | exon_skip_296314 | rs11045918 | chr12:21267778 | 1.421316e-05 | 3.304708e-03 |
TC | exon_skip_133496 | rs17681288 | chr12:21392078 | 8.974824e-05 | 1.498262e-02 |
HCC | exon_skip_296314 | rs7962263 | chr12:21313183 | 1.305648e-09 | 3.819755e-07 |
HCC | exon_skip_296314 | rs4148986 | chr12:21333090 | 4.437549e-09 | 1.168593e-06 |
HCC | exon_skip_296314 | rs4148987 | chr12:21329547 | 6.774665e-09 | 1.725401e-06 |
HCC | exon_skip_296314 | rs10841791 | chr12:21321580 | 7.059315e-09 | 1.790538e-06 |
HCC | exon_skip_296314 | rs7313671 | chr12:21322918 | 7.059315e-09 | 1.790538e-06 |
HCC | exon_skip_296314 | rs4148988 | chr12:21325056 | 9.282214e-09 | 2.293348e-06 |
HCC | exon_skip_296314 | rs4148984 | chr12:21333262 | 2.115305e-08 | 4.858265e-06 |
HCC | exon_skip_296314 | rs11045913 | chr12:21263479 | 3.068845e-07 | 5.571857e-05 |
HCC | exon_skip_296314 | rs11045953 | chr12:21302117 | 1.793724e-06 | 2.764097e-04 |
HCC | exon_skip_296314 | rs3794319 | chr12:21305866 | 8.815508e-06 | 1.127606e-03 |
HCC | exon_skip_296314 | rs11045872 | chr12:21219410 | 1.261864e-05 | 1.541427e-03 |
HCC | exon_skip_296314 | rs11045907 | chr12:21256885 | 6.144304e-05 | 6.042559e-03 |
HCC | exon_skip_296314 | rs11045908 | chr12:21257155 | 6.463408e-05 | 6.307998e-03 |
HCC | exon_skip_133496 | rs11045953 | chr12:21302117 | 1.299109e-04 | 1.140367e-02 |
HCC | exon_skip_133496 | rs7962263 | chr12:21313183 | 1.320494e-04 | 1.155593e-02 |
HCC | exon_skip_133496 | rs10841791 | chr12:21321580 | 2.432510e-04 | 1.905952e-02 |
HCC | exon_skip_133496 | rs7313671 | chr12:21322918 | 2.432510e-04 | 1.905952e-02 |
HCC | exon_skip_133496 | rs4148988 | chr12:21325056 | 3.325705e-04 | 2.454111e-02 |
HCC | exon_skip_133496 | rs4148986 | chr12:21333090 | 3.582321e-04 | 2.600638e-02 |
HCC | exon_skip_133496 | rs4148987 | chr12:21329547 | 3.621363e-04 | 2.623347e-02 |
HCC | exon_skip_133496 | rs4148984 | chr12:21333262 | 5.235144e-04 | 3.517584e-02 |
HCC | exon_skip_133496 | rs3794319 | chr12:21305866 | 6.067685e-04 | 3.947169e-02 |
HCC | exon_skip_296314 | rs10841797 | chr12:21355296 | 6.927076e-04 | 4.384635e-02 |
PCC | exon_skip_296314 | rs7962263 | chr12:21313183 | 2.385285e-06 | 7.324026e-04 |
PCC | exon_skip_296314 | rs10841791 | chr12:21321580 | 3.485451e-06 | 1.023278e-03 |
PCC | exon_skip_296314 | rs7313671 | chr12:21322918 | 3.485451e-06 | 1.023278e-03 |
PCC | exon_skip_296314 | rs4148988 | chr12:21325056 | 3.485451e-06 | 1.023278e-03 |
PCC | exon_skip_296314 | rs4148987 | chr12:21329547 | 3.485451e-06 | 1.023278e-03 |
PCC | exon_skip_296314 | rs4148984 | chr12:21333262 | 1.039813e-05 | 2.631830e-03 |
PCC | exon_skip_296314 | rs4148986 | chr12:21333090 | 1.222919e-05 | 3.019186e-03 |
PCC | exon_skip_133496 | rs7962263 | chr12:21313183 | 3.210321e-05 | 6.863695e-03 |
PCC | exon_skip_296314 | rs10841805 | chr12:21410210 | 3.604379e-05 | 7.578074e-03 |
PCC | exon_skip_133496 | rs11045872 | chr12:21219410 | 4.418913e-05 | 8.951103e-03 |
PCC | exon_skip_133496 | rs11045953 | chr12:21302117 | 1.038531e-04 | 1.774755e-02 |
PCC | exon_skip_296314 | rs7967339 | chr12:21402757 | 1.121655e-04 | 1.889382e-02 |
PCC | exon_skip_296314 | rs11045913 | chr12:21263479 | 2.274488e-04 | 3.301876e-02 |
PCC | exon_skip_296314 | rs3794319 | chr12:21305866 | 3.478936e-04 | 4.578893e-02 |
DLPFC | exon_skip_296314 | rs4148984 | chr12:21333262 | 4.178114e-07 | 6.749756e-05 |
DLPFC | exon_skip_296314 | rs4148986 | chr12:21333090 | 6.713025e-07 | 1.030665e-04 |
DLPFC | exon_skip_296314 | rs7962263 | chr12:21313183 | 7.376720e-07 | 1.124297e-04 |
DLPFC | exon_skip_296314 | rs10841791 | chr12:21321580 | 1.516972e-06 | 2.129407e-04 |
DLPFC | exon_skip_296314 | rs7313671 | chr12:21322918 | 1.516972e-06 | 2.129407e-04 |
DLPFC | exon_skip_296314 | rs4148988 | chr12:21325056 | 2.590490e-06 | 3.412644e-04 |
DLPFC | exon_skip_296314 | rs4148987 | chr12:21329547 | 2.786077e-06 | 3.634858e-04 |
DLPFC | exon_skip_133496 | rs7966613 | chr12:21226698 | 3.523824e-05 | 3.388774e-03 |
DLPFC | exon_skip_296314 | rs3794319 | chr12:21305866 | 5.694940e-05 | 5.187022e-03 |
DLPFC | exon_skip_296314 | rs11045953 | chr12:21302117 | 7.561032e-05 | 6.633495e-03 |
DLPFC | exon_skip_133496 | rs4149076 | chr12:21218210 | 1.648369e-04 | 1.301269e-02 |
DLPFC | exon_skip_133496 | rs7962263 | chr12:21313183 | 4.169624e-04 | 2.790491e-02 |
DLPFC | exon_skip_296314 | rs11045913 | chr12:21263479 | 5.274319e-04 | 3.366596e-02 |
DLPFC | exon_skip_296314 | rs11045872 | chr12:21219410 | 5.834439e-04 | 3.650196e-02 |
DLPFC | exon_skip_133496 | rs11045953 | chr12:21302117 | 8.540117e-04 | 4.912420e-02 |
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Correlation with RNA binding proteins (RBPs) for SLCO1A2 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | TARDBP | exon_skip_296314 | 4.700015e-01 | 1.914415e-08 |
CB | CNOT4 | exon_skip_296314 | 4.419541e-01 | 1.577038e-07 |
IFG | FUBP1 | exon_skip_54973 | -4.495029e-01 | 1.640529e-02 |
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RelatedDrugs for SLCO1A2 |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
P46721 | approved | DB01045 | Rifampicin | small molecule | P46721 |
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RelatedDiseases for SLCO1A2 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |