MmuEX6056190 @ mm10
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97978338-97979272:-
Coord C1 exon
chr15:97979165-97979272
Coord A exon
chr15:97978878-97978931
Coord C2 exon
chr15:97978338-97978445
Length
54 bp
Sequences
Splice sites
3' ss Seq
TGTTTTCTTCTTTTCCACAGGGT
3' ss Score
11.98
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGCCCTCAAGGCCCCCGAGGTGACAAAGGAGAATCTGGAGAGCAGGGCGAGAGGGGACTGAAGGGACACCGAGGTTTCACTGGACTGCAGGGTCTGCCTGGCCCTCCG
Seq A exon
GGTCCTTCTGGAGATCAGGGTGCTTCTGGCCCTGCTGGTCCTTCTGGCCCTAGA
Seq C2 exon
GGTCCACCTGGCCCTGTTGGTCCCTCTGGCAAAGATGGCTCTAATGGAATCCCTGGCCCCATCGGGCCTCCAGGTCCCCGTGGACGCTCAGGAGAAACAGGCCCTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'64-59,'64-58,65-59=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(17.6=41.7),PF0139113=Collagen=FE(46.7=100)
A:
PF0139113=Collagen=PD(24.6=88.9),PF0139113=Collagen=PU(11.1=38.9)
C2:
PF0139113=Collagen=PD(10.7=22.2),PF0139113=Collagen=FE(54.7=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:
GAGGTTTCACTGGACTGCAGG
R:
CTGTTTCTCCTGAGCGTCCAC
Band lengths:
138-192
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