DreEX0073447 @ danRer10
Exon Skipping
Gene
ENSDARG00000004246 | slit2
Description
slit homolog 2 (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-010306-3]
Coordinates
chr1:23174108-23175768:+
Coord C1 exon
chr1:23174108-23174271
Coord A exon
chr1:23174734-23174757
Coord C2 exon
chr1:23175748-23175768
Length
24 bp
Sequences
Splice sites
3' ss Seq
GTGTGTCTCTCTTTGTATAGCTA
3' ss Score
8.56
5' ss Seq
CAGGTATGT
5' ss Score
9.8
Exon sequences
Seq C1 exon
TCATCTGGCCCAGAACCCCTTCATGTGTGACTGCCATTTGAAGTGGTTAGCAGATTACCTGCAAGACAACCCTATTGAGACCAGTGGAGCTCGGTGCACCAGTCCCCGGCGCCTTGCTAACAAACGTATTGGCCAGATCAAGAGCAAAAAGTTCCGCTGTTCAG
Seq A exon
CTAAAGAGCAATATTTTATACCAG
Seq C2 exon
GGATTCATCATATCAATAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004246-'18-17,'18-16,19-17
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF127992=LRR_4=PD(35.4=30.4)
A:
NO
C2:
NO
Main Inclusion Isoform:
ENSDART00000171951fB6128

Main Skipping Isoform:
ENSDART00000171951fB6129

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 3 annotated functions for this event
PMID: 21264840
Exon 15 (HsaEX0060159) encodes a region of the Slit2 protein near the binding domain of the Robo1 receptor. The exclusion of exon 15 inhibits lung cancer cell growth in cell lines and mouse xenografts. Both isoforms of Slit2, with and without exon 15, suppress cancer invasiveness. In vivo, the inclusion of this exon may be an important event in cancer progression and invasion.
PMID: 26021305
The aim of this study was to elucidate the differential roles of these exon 15 splicing variants in angiogenesis. These results revealed that both Slit2-WT and Slit2-deltaE15 inhibit motility of human umbilical vein endothelial cells (HUVECs). The conditioned medium (CM) collected from CL1-5/VC or CL1-5/Slit2-WT lung adenocarcinoma cells blocked HUVEC tube formation and angiogenesis on chorioallantoic membrane (CAM) assay when compared with untreated HUVECs and CAM, respectively. However, CM of CL1-5/Slit2-deltaE15 restored the quality of tubes and the size of vessels. Although both Slit2-WT and Slit2-deltaE15 inhibited permeability induced by CM of cancer cells, Slit2-deltaE15 exhibited stronger effect. These results suggested that Slit2-deltaE15 plays important roles in normalization of blood vessels by enhancing tube quality and tightening endothelial cells, while Slit2-WT only enhances tightening of endothelial cells. It appears that Robo4 is responsible for Slit2 isoform-mediated inhibition of permeability, while neither Robo1 nor Robo4 is required for Slit2-deltaE15-enhanced tube quality.
PMID: 30717252
The results of this study suggested that the upregulation of Slit2-WT, but not Slit2-deltaE15, in a cancer microenvironment is an important factor in suppressing immunity while not interfering with cancer growth. These conclusions are based on indirect assays: testing how the ratio inclusion/skipping changes in different experimental conditions.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]