MmuEX6056186 @ mm10
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97979632-97980253:-
Coord C1 exon
chr15:97980146-97980253
Coord A exon
chr15:97979875-97979928
Coord C2 exon
chr15:97979632-97979739
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCTCATGTCCCCTTGTCCAGGGC
3' ss Score
7.77
5' ss Seq
AAGGTAAGT
5' ss Score
11
Exon sequences
Seq C1 exon
GGTGAGCCCGGCAAGCAGGGTGCACCTGGCGCGTCTGGAGACAGAGGTCCTCCTGGTCCTGTGGGGCCTCCTGGCCTGACAGGGCCTGCAGGTGAACCTGGACGAGAG
Seq A exon
GGCAGCCCTGGTGCTGATGGACCCCCTGGAAGAGATGGTGCAGCTGGAGTCAAG
Seq C2 exon
GGAGATCGTGGTGAGACTGGAGCACTGGGTGCCCCTGGAGCTCCTGGGCCCCCAGGCTCTCCTGGTCCTGCTGGCCCAACTGGCAAACAAGGAGACAGAGGAGAGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'60-55,'60-53,61-55=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(16.7=38.9),PF0139113=Collagen=FE(54.7=100),PF0139113=Collagen=PU(46.4=88.9)
A:
PF0139113=Collagen=PD(16.4=61.1),PF0139113=Collagen=FE(22.7=100),PF0139113=Collagen=PU(16.5=77.8)
C2:
PF0139113=Collagen=PD(22.7=47.2),PF0139113=Collagen=FE(41.2=100)
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:
GAGACAGAGGTCCTCCTGGTC
R:
GCCAGCAGGACCAGGAGA
Band lengths:
146-200
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