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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 CIRBP |
 Gene summary |
| Gene information | Gene symbol | CIRBP | Gene ID | 1153 |
| Gene name | cold inducible RNA binding protein | |
| Synonyms | CIRP | |
| Cytomap | 19p13.3 | |
| Type of gene | protein-coding | |
| Description | cold-inducible RNA-binding proteinA18 hnRNPglycine-rich RNA binding proteintesticular tissue protein Li 39 | |
| Modification date | 20200327 | |
| UniProtAcc | D6W5Y5, F6WMK9, K7EIF7, K7EJV1, | |
| Context | - 32184914(CIRBP Ameliorates Neuronal Amyloid Toxicity via Antioxidative and Antiapoptotic Pathways in Primary Cortical Neurons) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| CIRBP | GO:0009411 | response to UV | 11574538 |
| CIRBP | GO:0045727 | positive regulation of translation | 11574538 |
| CIRBP | GO:0048255 | mRNA stabilization | 11574538 |
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Gene structures and expression levels for CIRBP |
| 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. |
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ENSG00000099622
| 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. |
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| Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
| DLPFC | DOWN | ENST00000592051.1 | CIRBP-236:protein_coding:CIRBP | 3.561488e+00 | -8.061592e-01 | 5.249202e-04 | 2.193376e-02 |
| PCC | DOWN | ENST00000444172.6 | CIRBP-203:nonsense_mediated_decay:CIRBP | 2.081284e+00 | -1.225225e+00 | 1.063899e-03 | 2.656957e-02 |
| HCC | DOWN | ENST00000588917.2 | CIRBP-220:retained_intron:CIRBP | 1.092993e+01 | -8.938951e-01 | 2.649318e-04 | 1.401901e-02 |
| HCC | UP | ENST00000589235.5 | CIRBP-222:protein_coding:CIRBP | 8.136391e+00 | 1.330418e+00 | 3.247097e-04 | 1.602099e-02 |
| PG | DOWN | ENST00000592051.1 | CIRBP-236:protein_coding:CIRBP | 1.100928e+00 | -1.512952e+00 | 1.545100e-03 | 1.988816e-02 |
| CB | DOWN | ENST00000621399.1 | CIRBP-245:retained_intron:CIRBP | 1.546152e+03 | -1.288986e+00 | 4.583368e-15 | 1.869811e-12 |
| CB | DOWN | ENST00000590188.5 | CIRBP-227:lncRNA:CIRBP | 8.017138e+01 | -1.009715e+00 | 1.173144e-13 | 2.583097e-11 |
| CB | DOWN | ENST00000588344.2 | CIRBP-218:protein_coding:CIRBP | 2.053593e+01 | -9.770487e-01 | 4.360636e-08 | 1.050042e-06 |
| CB | DOWN | ENST00000588917.2 | CIRBP-220:retained_intron:CIRBP | 6.746824e+02 | -1.049879e+00 | 8.238865e-08 | 1.802193e-06 |
| CB | DOWN | ENST00000586555.2 | CIRBP-209:retained_intron:CIRBP | 2.996783e+00 | -2.505458e+00 | 1.254408e-07 | 2.575166e-06 |
| CB | DOWN | ENST00000592234.5 | CIRBP-237:nonsense_mediated_decay:CIRBP | 2.465808e+00 | -1.290408e+00 | 1.782411e-04 | 1.207770e-03 |
| CB | DOWN | ENST00000592051.1 | CIRBP-236:protein_coding:CIRBP | 3.704552e+00 | -1.124316e+00 | 1.845406e-04 | 1.243114e-03 |
| CB | DOWN | ENST00000585914.5 | CIRBP-206:nonsense_mediated_decay:CIRBP | 2.640372e+01 | -8.409573e-01 | 2.815270e-04 | 1.776726e-03 |
| CB | DOWN | ENST00000587169.5 | CIRBP-212:nonsense_mediated_decay:CIRBP | 8.652136e+02 | -9.198384e-01 | 2.955824e-04 | 1.850638e-03 |
| CB | DOWN | ENST00000444172.6 | CIRBP-203:nonsense_mediated_decay:CIRBP | 8.753008e+00 | -1.871122e+00 | 8.385962e-04 | 4.450050e-03 |
| CB | DOWN | ENST00000589710.5 | CIRBP-225:protein_coding:CIRBP | 5.747427e+02 | -1.068803e+00 | 9.452670e-03 | 3.320077e-02 |
| TC | DOWN | ENST00000590188.5 | CIRBP-227:lncRNA:CIRBP | 3.958692e+01 | -1.219339e+00 | 1.106737e-15 | 1.042728e-12 |
| TC | DOWN | ENST00000621399.1 | CIRBP-245:retained_intron:CIRBP | 8.734262e+02 | -1.211362e+00 | 1.146703e-15 | 1.073033e-12 |
| TC | DOWN | ENST00000592051.1 | CIRBP-236:protein_coding:CIRBP | 6.763640e+00 | -1.976188e+00 | 2.017690e-09 | 2.348100e-07 |
| TC | DOWN | ENST00000588917.2 | CIRBP-220:retained_intron:CIRBP | 2.394220e+02 | -8.931412e-01 | 1.458901e-06 | 5.447355e-05 |
| TC | DOWN | ENST00000587169.5 | CIRBP-212:nonsense_mediated_decay:CIRBP | 7.976283e+02 | -9.099773e-01 | 1.307911e-04 | 2.002325e-03 |
| TC | DOWN | ENST00000586548.5 | CIRBP-208:protein_coding:CIRBP | 5.113900e+00 | -1.983720e+00 | 6.838103e-03 | 4.227515e-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 CIRBP |
| Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
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| All exon skipping events in AD cohorts. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
| exon_skip_10468 | chr19 | 1261382:1261641:1264253:1264463:1270928:1271029 | 1264253:1264463 |
| exon_skip_13052 | chr19 | 1271982:1272051:1273601:1273715:1274307:1274375 | 1273601:1273715 |
| exon_skip_170152 | chr19 | 1269356:1269410:1270867:1271036:1271329:1271360 | 1270867:1271036 |
| exon_skip_184052 | chr19 | 1271982:1272051:1273494:1273715:1274307:1274440 | 1273494:1273715 |
| exon_skip_190871 | chr19 | 1271030:1271036:1271140:1271365:1271551:1271564 | 1271140:1271365 |
| exon_skip_209497 | chr19 | 1271030:1271036:1271140:1271467:1271551:1271632 | 1271140:1271467 |
| exon_skip_221055 | chr19 | 1261382:1261641:1264253:1264463:1270928:1270962 | 1264253:1264463 |
| exon_skip_224328 | chr19 | 1271982:1272051:1273601:1273715:1274307:1274410 | 1273601:1273715 |
| exon_skip_258441 | chr19 | 1270928:1271036:1271121:1271246:1271329:1271360 | 1271121:1271246 |
| exon_skip_26158 | chr19 | 1271329:1271467:1271551:1271632:1271981:1271995 | 1271551:1271632 |
| exon_skip_262541 | chr19 | 1271030:1271036:1271121:1271246:1271329:1271360 | 1271121:1271246 |
| exon_skip_273 | chr19 | 1271329:1271365:1271551:1271632:1271981:1271995 | 1271551:1271632 |
| exon_skip_274154 | chr19 | 1271030:1271036:1271140:1271246:1271329:1271360 | 1271140:1271246 |
| exon_skip_274229 | chr19 | 1269356:1269410:1270928:1271467:1271551:1271632 | 1270928:1271467 |
| exon_skip_277687 | chr19 | 1271981:1272051:1273601:1273715:1274307:1274440 | 1273601:1273715 |
| exon_skip_290234 | chr19 | 1261382:1261641:1264253:1264463:1270928:1270942 | 1264253:1264463 |
| exon_skip_31836 | chr19 | 1271030:1271036:1271140:1271467:1271551:1271564 | 1271140:1271467 |
| exon_skip_41590 | chr19 | 1271982:1272051:1273494:1273715:1274307:1274410 | 1273494:1273715 |
| exon_skip_50941 | chr19 | 1269330:1269410:1269912:1269915:1270928:1271036 | 1269912:1269915 |
| exon_skip_51273 | chr19 | 1271982:1272051:1273494:1273715:1274307:1274375 | 1273494:1273715 |
| exon_skip_55567 | chr19 | 1269356:1269410:1270928:1271036:1271329:1271360 | 1270928:1271036 |
| exon_skip_76985 | chr19 | 1271030:1271036:1271140:1271365:1271551:1271632 | 1271140:1271365 |
| exon_skip_79419 | chr19 | 1269332:1269407:1270880:1270882:1270928:1271036 | 1270880:1270882 |
| exon_skip_96598 | chr19 | 1271030:1271036:1271329:1271467:1271551:1271564 | 1271329:1271467 |
| exon_skip_97302 | chr19 | 1271030:1271036:1271329:1271467:1271551:1271632 | 1271329:1271467 |
| exon_skip_97483 | chr19 | 1261382:1261641:1264253:1264463:1270928:1271016 | 1264253:1264463 |
| Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
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| Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
| exon_skip_170152 | Mayo_CB | 5.103750e-01 | 6.375325e-01 | -1.271575e-01 | 3.794199e-04 |
| exon_skip_55567 | Mayo_CB | 5.103750e-01 | 6.375325e-01 | -1.271575e-01 | 3.794199e-04 |
| exon_skip_170152 | Mayo_TC | 5.837879e-01 | 7.451429e-01 | -1.613550e-01 | 2.330515e-02 |
| exon_skip_55567 | Mayo_TC | 5.837879e-01 | 7.451429e-01 | -1.613550e-01 | 2.330515e-02 |
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Open reading frame (ORF) annotation in the exon skipping event for CIRBP |
| 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 |
| ENST00000320936 | 1271140 | 1271246 | Frame-shift |
| ENST00000585630 | 1271140 | 1271246 | Frame-shift |
| ENST00000586472 | 1271140 | 1271246 | Frame-shift |
| ENST00000588030 | 1271140 | 1271246 | Frame-shift |
| ENST00000588090 | 1271140 | 1271246 | Frame-shift |
| ENST00000320936 | 1271551 | 1271632 | Frame-shift |
| ENST00000585630 | 1271551 | 1271632 | Frame-shift |
| ENST00000586472 | 1271551 | 1271632 | Frame-shift |
| ENST00000588030 | 1271551 | 1271632 | Frame-shift |
| ENST00000588090 | 1271551 | 1271632 | 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 |
| ENST00000320936 | 1271140 | 1271246 | Frame-shift |
| ENST00000585630 | 1271140 | 1271246 | Frame-shift |
| ENST00000586472 | 1271140 | 1271246 | Frame-shift |
| ENST00000588030 | 1271140 | 1271246 | Frame-shift |
| ENST00000588090 | 1271140 | 1271246 | 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 |
| ENST00000320936 | 1271140 | 1271246 | Frame-shift |
| ENST00000585630 | 1271140 | 1271246 | Frame-shift |
| ENST00000586472 | 1271140 | 1271246 | Frame-shift |
| ENST00000588030 | 1271140 | 1271246 | Frame-shift |
| ENST00000588090 | 1271140 | 1271246 | Frame-shift |
| ENST00000320936 | 1271551 | 1271632 | Frame-shift |
| ENST00000585630 | 1271551 | 1271632 | Frame-shift |
| ENST00000586472 | 1271551 | 1271632 | Frame-shift |
| ENST00000588030 | 1271551 | 1271632 | Frame-shift |
| ENST00000588090 | 1271551 | 1271632 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for CIRBP |
p-ENSG00000099622_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 CIRBP |
| 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 CIRBP |
| - 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 CIRBP |
| 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 CIRBP |
| 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 CIRBP |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | CNOT4 | exon_skip_170152 | -4.262434e-01 | 2.606999e-08 |
| CB | TRA2A | exon_skip_170152 | -4.269666e-01 | 2.455040e-08 |
| CB | RBM4B | exon_skip_170152 | -4.459908e-01 | 4.804328e-09 |
| CB | CNOT4 | exon_skip_55567 | -4.262434e-01 | 2.606999e-08 |
| CB | TRA2A | exon_skip_55567 | -4.269666e-01 | 2.455040e-08 |
| PCC | RBM3 | exon_skip_184052 | 4.409426e-01 | 1.516011e-11 |
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RelatedDrugs for CIRBP |
| 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 CIRBP |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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