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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 SLIT2 |
 Gene summary |
| Gene information | Gene symbol | SLIT2 | Gene ID | 9353 |
| Gene name | slit guidance ligand 2 | |
| Synonyms | SLIL3|Slit-2 | |
| Cytomap | 4p15.31 | |
| Type of gene | protein-coding | |
| Description | slit homolog 2 protein | |
| Modification date | 20200313 | |
| UniProtAcc | A0A087WYV5, | |
| Context | - 25114073(Increased permeability of the blood-brain barrier and Alzheimer's disease-like alterations in slit-2 transgenic mice) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| SLIT2 | GO:0001933 | negative regulation of protein phosphorylation | 18345009 |
| SLIT2 | GO:0002689 | negative regulation of leukocyte chemotaxis | 11309622 |
| SLIT2 | GO:0007411 | axon guidance | 11748139 |
| SLIT2 | GO:0008045 | motor neuron axon guidance | 10102268 |
| SLIT2 | GO:0010593 | negative regulation of lamellipodium assembly | 16439689 |
| SLIT2 | GO:0010596 | negative regulation of endothelial cell migration | 18345009 |
| SLIT2 | GO:0014912 | negative regulation of smooth muscle cell migration | 16439689 |
| SLIT2 | GO:0021834 | chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration | 11748139 |
| SLIT2 | GO:0021836 | chemorepulsion involved in postnatal olfactory bulb interneuron migration | 15207848 |
| SLIT2 | GO:0030336 | negative regulation of cell migration | 19005219 |
| SLIT2 | GO:0030837 | negative regulation of actin filament polymerization | 19759280 |
| SLIT2 | GO:0031290 | retinal ganglion cell axon guidance | 10864954|19498462 |
| SLIT2 | GO:0043116 | negative regulation of vascular permeability | 18345009 |
| SLIT2 | GO:0048754 | branching morphogenesis of an epithelial tube | 18345009 |
| SLIT2 | GO:0048846 | axon extension involved in axon guidance | 16840550 |
| SLIT2 | GO:0050919 | negative chemotaxis | 11748139 |
| SLIT2 | GO:0050929 | induction of negative chemotaxis | 10197527 |
| SLIT2 | GO:0051058 | negative regulation of small GTPase mediated signal transduction | 16439689 |
| SLIT2 | GO:0071504 | cellular response to heparin | 17062560 |
| SLIT2 | GO:0071672 | negative regulation of smooth muscle cell chemotaxis | 16439689 |
| SLIT2 | GO:0071676 | negative regulation of mononuclear cell migration | 16439689 |
| SLIT2 | GO:0090024 | negative regulation of neutrophil chemotaxis | 19759280 |
| SLIT2 | GO:0090260 | negative regulation of retinal ganglion cell axon guidance | 17062560 |
| SLIT2 | GO:0090288 | negative regulation of cellular response to growth factor stimulus | 16439689 |
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Gene structures and expression levels for SLIT2 |
| 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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ENSG00000145147
| 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 |
| STG | UP | ENST00000503823.5 | SLIT2-202:protein_coding:SLIT2 | 6.379062e+00 | 5.705932e+00 | 2.919471e-04 | 2.026696e-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 SLIT2 |
| 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_106546 | chr4 | 20488819:20488982:20489943:20489954:20491761:20491899 | 20489943:20489954 |
| exon_skip_142889 | chr4 | 20553853:20553968:20554308:20554340:20567262:20567386 | 20554308:20554340 |
| exon_skip_144116 | chr4 | 20546031:20546099:20548488:20548559:20549057:20549128 | 20548488:20548559 |
| exon_skip_186221 | chr4 | 20568865:20569004:20573234:20573260:20589644:20589737 | 20573234:20573260 |
| exon_skip_191040 | chr4 | 20524162:20524177:20525149:20525172:20528949:20529099 | 20525149:20525172 |
| exon_skip_202124 | chr4 | 20546031:20546099:20548488:20548559:20549057:20549127 | 20548488:20548559 |
| exon_skip_205839 | chr4 | 20553805:20553968:20554308:20554340:20567262:20567386 | 20554308:20554340 |
| exon_skip_271991 | chr4 | 20548488:20548559:20549057:20549128:20550827:20550898 | 20549057:20549128 |
| exon_skip_280312 | chr4 | 20488819:20488982:20490803:20490814:20491761:20491899 | 20490803:20490814 |
| exon_skip_65345 | chr4 | 20524014:20524177:20525149:20525172:20528949:20529099 | 20525149:20525172 |
| exon_skip_70033 | chr4 | 20531984:20532058:20533572:20533715:20539441:20539566 | 20533572:20533715 |
| 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 SLIT2 |
| 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 |
| ENST00000504154 | 20525149 | 20525172 | In-frame |
| ENST00000504154 | 20548488 | 20548559 | In-frame |
| ENST00000504154 | 20549057 | 20549128 | In-frame |
| 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 |
| ENST00000504154 | 20525149 | 20525172 | In-frame |
| ENST00000504154 | 20548488 | 20548559 | In-frame |
| 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 |
| ENST00000504154 | 20525149 | 20525172 | In-frame |
| ENST00000504154 | 20533572 | 20533715 | In-frame |
| ENST00000504154 | 20548488 | 20548559 | In-frame |
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Infer the effects of exon skipping event on protein functional features for SLIT2 |
p-ENSG00000145147_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 |
| ENST00000504154 | 6407 | 1529 | 20548488 | 20548559 | 2599 | 2669 | 782 | 805 |
| ENST00000504154 | 6407 | 1529 | 20549057 | 20549128 | 2671 | 2741 | 806 | 829 |
| 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 |
| ENST00000504154 | 6407 | 1529 | 20548488 | 20548559 | 2599 | 2669 | 782 | 805 |
| 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 |
| ENST00000504154 | 6407 | 1529 | 20533572 | 20533715 | 1942 | 2084 | 563 | 610 |
| ENST00000504154 | 6407 | 1529 | 20548488 | 20548559 | 2599 | 2669 | 782 | 805 |
| 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 |
| O94813 | 782 | 805 | 781 | 783 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| O94813 | 782 | 805 | 805 | 807 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| O94813 | 782 | 805 | 31 | 1529 | Chain | ID=PRO_0000007725;Note=Slit homolog 2 protein |
| O94813 | 782 | 805 | 31 | 1121 | Chain | ID=PRO_0000007726;Note=Slit homolog 2 protein N-product |
| O94813 | 782 | 805 | 794 | 794 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O94813 | 782 | 805 | 799 | 799 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O94813 | 782 | 805 | 778 | 799 | Repeat | Note=LRR 18 |
| O94813 | 782 | 805 | 802 | 823 | Repeat | Note=LRR 19 |
| O94813 | 782 | 805 | 794 | 799 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| O94813 | 806 | 829 | 805 | 807 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| O94813 | 806 | 829 | 829 | 831 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| O94813 | 806 | 829 | 31 | 1529 | Chain | ID=PRO_0000007725;Note=Slit homolog 2 protein |
| O94813 | 806 | 829 | 31 | 1121 | Chain | ID=PRO_0000007726;Note=Slit homolog 2 protein N-product |
| O94813 | 806 | 829 | 802 | 823 | Repeat | Note=LRR 19 |
| O94813 | 806 | 829 | 826 | 847 | Repeat | Note=LRR 20 |
| O94813 | 806 | 829 | 818 | 823 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| 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 |
| O94813 | 782 | 805 | 781 | 783 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| O94813 | 782 | 805 | 805 | 807 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| O94813 | 782 | 805 | 31 | 1529 | Chain | ID=PRO_0000007725;Note=Slit homolog 2 protein |
| O94813 | 782 | 805 | 31 | 1121 | Chain | ID=PRO_0000007726;Note=Slit homolog 2 protein N-product |
| O94813 | 782 | 805 | 794 | 794 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O94813 | 782 | 805 | 799 | 799 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O94813 | 782 | 805 | 778 | 799 | Repeat | Note=LRR 18 |
| O94813 | 782 | 805 | 802 | 823 | Repeat | Note=LRR 19 |
| O94813 | 782 | 805 | 794 | 799 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| 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 |
| O94813 | 563 | 610 | 562 | 564 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2V70 |
| O94813 | 563 | 610 | 586 | 588 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2V70 |
| O94813 | 563 | 610 | 610 | 612 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2V70 |
| O94813 | 563 | 610 | 31 | 1529 | Chain | ID=PRO_0000007725;Note=Slit homolog 2 protein |
| O94813 | 563 | 610 | 31 | 1121 | Chain | ID=PRO_0000007726;Note=Slit homolog 2 protein N-product |
| O94813 | 563 | 610 | 564 | 564 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O94813 | 563 | 610 | 599 | 602 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2V70 |
| O94813 | 563 | 610 | 559 | 580 | Repeat | Note=LRR 13 |
| O94813 | 563 | 610 | 583 | 604 | Repeat | Note=LRR 14 |
| O94813 | 563 | 610 | 607 | 628 | Repeat | Note=LRR 15 |
| O94813 | 563 | 610 | 607 | 610 | Sequence conflict | Note=SLKT->KPQN;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| O94813 | 563 | 610 | 575 | 580 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2V70 |
| O94813 | 782 | 805 | 781 | 783 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| O94813 | 782 | 805 | 805 | 807 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
| O94813 | 782 | 805 | 31 | 1529 | Chain | ID=PRO_0000007725;Note=Slit homolog 2 protein |
| O94813 | 782 | 805 | 31 | 1121 | Chain | ID=PRO_0000007726;Note=Slit homolog 2 protein N-product |
| O94813 | 782 | 805 | 794 | 794 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O94813 | 782 | 805 | 799 | 799 | Glycosylation | Note=N-linked (GlcNAc...) asparagine;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O94813 | 782 | 805 | 778 | 799 | Repeat | Note=LRR 18 |
| O94813 | 782 | 805 | 802 | 823 | Repeat | Note=LRR 19 |
| O94813 | 782 | 805 | 794 | 799 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2WFH |
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3'-UTR located exon skipping events that lost miRNA binding sites in SLIT2 |
| 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 SLIT2 |
| - 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 SLIT2 |
| 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 SLIT2 |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
| HCC | exon_skip_65345 | rs8663 | chr4:20620067 | 2.538430e-04 | 1.970537e-02 |
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Correlation with RNA binding proteins (RBPs) for SLIT2 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for SLIT2 |
| 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 SLIT2 |
| 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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