MmuEX6064178 @ mm10
Exon Skipping
Gene
ENSMUSG00000004098 | Col5a3
Description
collagen, type V, alpha 3 [Source:MGI Symbol;Acc:MGI:1858212]
Coordinates
chr9:20801944-20803048:-
Coord C1 exon
chr9:20803007-20803048
Coord A exon
chr9:20802458-20802520
Coord C2 exon
chr9:20801944-20802018
Length
63 bp
Sequences
Splice sites
3' ss Seq
TCTGATTTCTGTCTCCACAGGGA
3' ss Score
11.3
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
Exon sequences
Seq C1 exon
GGACAGCAGTTTGAGGGGCCTGCAGGAGCTCCAGGACCCCGG
Seq A exon
GGAATATCTGGTCCTTCAGGCCCTCCTGGGCCTCCGGGCTTCCCTGGGGACCGTGGTCTACCG
Seq C2 exon
GGTCCTGCCGGCCTCCCAGGAATCCCAGGCATCGATGGAGCCCGGGGCCTGCCGGGCACAGTGATTATGATGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004098-'15-19,'15-18,16-19=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(17.8=100)
A:
PF0139113=Collagen=FE(27.4=100)
C2:
PF0139113=Collagen=PD(27.4=80.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGCAGTTTGAGGGGCC
R:
CGGCATCATAATCACTGTGCC
Band lengths:
116-179
Functional annotations
There are 0 annotated functions for this event
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