MmuEX6076737 @ mm10
Exon Skipping
Gene
ENSMUSG00000038146 | Notch3
Description
notch 3 [Source:MGI Symbol;Acc:MGI:99460]
Coordinates
chr17:32147765-32150716:-
Coord C1 exon
chr17:32150603-32150716
Coord A exon
chr17:32149975-32150130
Coord C2 exon
chr17:32147765-32147990
Length
156 bp
Sequences
Splice sites
3' ss Seq
GCTTCCCCTCTCACCTCCAGGCC
3' ss Score
10.39
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
Exon sequences
Seq C1 exon
GCCATCAGTGTGAGGTGCTGTCCCCCTGTACTCCAAGCCTCTGTGAGCACGGAGGCCACTGTGAGTCTGACCCTGACCGGCTGACTGTCTGTTCCTGTCCCCCAGGCTGGCAAG
Seq A exon
GCCCACGATGCCAGCAGGATGTGGATGAATGTGCCGGTGCCTCACCCTGCGGCCCCCATGGTACCTGCACCAACCTGCCAGGGAATTTCAGGTGCATCTGCCACAGGGGATACACTGGCCCCTTCTGTGATCAAGACATTGACGACTGTGACCCCA
Seq C2 exon
ACCCGTGCCTCCATGGTGGCTCCTGCCAGGATGGCGTGGGCTCCTTTTCCTGTTCTTGCCTCGACGGCTTTGCTGGTCCTCGCTGTGCCCGAGATGTGGACGAATGTCTGAGCAGCCCCTGTGGCCCTGGCACCTGTACTGATCACGTGGCCTCCTTCACCTGTGCCTGTCCACCTGGTTATGGAGGCTTCCACTGTGAGATTGACTTGCCGGACTGCAGCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038146-'24-29,'24-28,26-29=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.5=5.1),PF0000822=EGF=PU(90.6=74.4)
A:
PF0000822=EGF=PD(6.2=3.8),PF0764510=EGF_CA=WD(100=73.6),PF0000822=EGF=PU(9.7=5.7)
C2:
PF0000822=EGF=PD(87.1=35.5),PF0764510=EGF_CA=WD(100=47.4),PF0000822=EGF=PU(9.7=3.9)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACTGTGAGTCTGACCCTGA
R:
CATAACCAGGTGGACAGGCAC
Band lengths:
242-398
Functional annotations
There are 1 annotated functions for this event
PMID: 30674940
This study does not directly assess the function of the events. It reports that NOTCH3 has differential exon 16 depletion (-exon 16) between differentiation associated BAGS subtypes. Predicted vincristine resistant patients of the GCB subclass had significantly downregulated NOTCH3 -exon 16 transcript expression and tended to display adverse overall survival for R-CHOP treated patients. Thus, this exon display prognostic and predictive biomarker potential in GCB DLBCL.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types