MmuEX6056158 @ mm10
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97990913-97994070:-
Coord C1 exon
chr15:97994017-97994070
Coord A exon
chr15:97991344-97991388
Coord C2 exon
chr15:97990913-97990966
Length
45 bp
Sequences
Splice sites
3' ss Seq
TGTGCTATTGCTGTTCACAGGGT
3' ss Score
8.3
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GGTCCCCGTGGCCTGCCTGGTGAGAGAGGACGGACTGGCCCTGCTGGTGCTGCT
Seq A exon
GGTGCTCGGGGTAACGATGGCCAGCCAGGCCCCGCTGGACCTCCG
Seq C2 exon
GGTCCTGTGGGTCCCGCAGGTGGTCCTGGCTTCCCTGGTGCTCCTGGTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'25-22,'25-21,29-22=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(25.8=100)
A:
PF0139113=Collagen=FE(21.2=100),PF0139113=Collagen=PU(8.9=53.3)
C2:
PF0139113=Collagen=FE(25.8=100),PF0139113=Collagen=FE(18.9=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:
TGGCCTGCCTGGTGAGAG
R:
CTTGGCACCAGGAGCACC
Band lengths:
100-145
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