MmuEX6056187 @ mm10
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97979385-97979928:-
Coord C1 exon
chr15:97979875-97979928
Coord A exon
chr15:97979632-97979739
Coord C2 exon
chr15:97979385-97979438
Length
108 bp
Sequences
Splice sites
3' ss Seq
CTGACACTTTGCTCCTACAGGGA
3' ss Score
9.69
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
Exon sequences
Seq C1 exon
GGCAGCCCTGGTGCTGATGGACCCCCTGGAAGAGATGGTGCAGCTGGAGTCAAG
Seq A exon
GGAGATCGTGGTGAGACTGGAGCACTGGGTGCCCCTGGAGCTCCTGGGCCCCCAGGCTCTCCTGGTCCTGCTGGCCCAACTGGCAAACAAGGAGACAGAGGAGAGGCT
Seq C2 exon
GGTGCACAAGGTCCTATGGGTCCCTCAGGACCTGCTGGAGCCCGTGGGATTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'61-56,'61-55,62-56=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=PD(16.4=61.1),PF0139113=Collagen=FE(22.7=100),PF0139113=Collagen=PU(16.5=77.8)
A:
PF0139113=Collagen=PD(22.7=47.2),PF0139113=Collagen=FE(41.2=100)
C2:
PF0139113=Collagen=FE(20.0=100),PF0139113=Collagen=PU(14.7=61.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCCTGGTGCTGATGGA
R:
TGCAATCCCACGGGCTCC
Band lengths:
106-214
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