MmuEX0012247 @ mm9
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130220602-130225395:+
Coord C1 exon
chr3:130220602-130220655
Coord A exon
chr3:130222695-130222721
Coord C2 exon
chr3:130225351-130225395
Length
27 bp
Sequences
Splice sites
3' ss Seq
ATCTCTCTTTTTGTGCTCAGGGA
3' ss Score
9.45
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
Exon sequences
Seq C1 exon
GGTGAGCCTGGATCACCTGGAGCAGCCGGGCAGAGTGGACTACCAGGACCTAAG
Seq A exon
GGAGAACCTGGAAAAGAAGGAGAAAAG
Seq C2 exon
GGAGATGCTGGAGAAAATGGTCCCAAAGGTGATACAGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058897_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(7.9=100),PF0139113=Collagen=FE(8.3=100)
A:
PF0139113=Collagen=FE(14.6=100)
C2:
PF0139113=Collagen=FE(10.4=100),PF0139113=Collagen=PU(3.1=18.2)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAGCCTGGATCACCTG
R:
TTTCTCCTGTATCACCTTTGGGAC
Band lengths:
96-123
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