MmuEX6056182 @ mm10
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97980725-97982057:-
Coord C1 exon
chr15:97982004-97982057
Coord A exon
chr15:97981515-97981568
Coord C2 exon
chr15:97980725-97980886
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCACCGCTCTGTGTCCACAGGGA
3' ss Score
11.44
5' ss Seq
AATGTGAGT
5' ss Score
7.8
Exon sequences
Seq C1 exon
GGTCCTACTGGAGTGACTGGTCCTAAGGGAGCCCGAGGTGCCCAAGGTCCCCCG
Seq A exon
GGAGCCACCGGATTCCCTGGAGCTGCTGGCCGAGTTGGACCCCCAGGTGCTAAT
Seq C2 exon
GGCAATCCTGGACCCGCCGGTCCCCCTGGTCCTGCTGGAAAAGATGGTCCCAAAGGTGTTCGAGGAGACAGTGGCCCCCCTGGCAGAGCTGGTGACCCCGGTCTTCAAGGTCCTGCAGGAGCTCCTGGCGAGAAAGGAGAACCTGGAGATGATGGTCCCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'56-50,'56-49,57-50=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(25.4=100),PF0139113=Collagen=PU(12.9=61.1)
A:
PF0139113=Collagen=FE(18.9=100),PF0139113=Collagen=FE(23.9=100),PF0139113=Collagen=PU(16.4=61.1)
C2:
PF0139113=Collagen=PD(5.6=9.3),PF0139113=Collagen=PD(47.9=63.0),PF0139113=Collagen=FE(79.1=100),PF0139113=Collagen=PU(38.1=59.3)
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:
GTCCTAAGGGAGCCCGAGG
R:
GACCTTGAAGACCGGGGTCA
Band lengths:
147-201
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