MmuEX0012196 @ mm9
Exon Skipping
Gene
ENSMUSG00000029661 | Col1a2
Description
collagen, type I, alpha 2 [Source:MGI Symbol;Acc:MGI:88468]
Coordinates
chr6:4473594-4474555:+
Coord C1 exon
chr6:4473594-4473647
Coord A exon
chr6:4474117-4474170
Coord C2 exon
chr6:4474502-4474555
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTGTTCTATTAAACATTTAGGGA
3' ss Score
6.49
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
Exon sequences
Seq C1 exon
GGTGATCCTGGCAAACCTGGTGAGAGAGGACACCCCGGTCTTGCTGGTGCTCGG
Seq A exon
GGAGCTCCAGGACCCGATGGCAACAATGGAGCTCAGGGCCCCCCTGGACCCCAG
Seq C2 exon
GGTGTTCAAGGTGGCAAAGGTGAACAAGGCCCTGCTGGTCCTCCTGGCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029661-'31-33,'31-32,32-33
Average complexity
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(27.9=100),PF0139113=Collagen=PU(6.1=22.2)
A:
PF0139113=Collagen=PD(14.8=50.0),PF0139113=Collagen=FE(25.8=100)
C2:
PF0139113=Collagen=FE(25.8=100),PF0139113=Collagen=PU(0.1=0.0)
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:
CTGGCAAACCTGGTGAGAGAG
R:
TGGAAGCCAGGAGGACCAG
Band lengths:
100-154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: