MmuEX0012242 @ mm9
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130287618-130292415:+
Coord C1 exon
chr3:130287618-130287644
Coord A exon
chr3:130288601-130288654
Coord C2 exon
chr3:130292329-130292415
Length
54 bp
Sequences
Splice sites
3' ss Seq
GTTTGCTTCTTATCCCCTAGGGC
3' ss Score
11.48
5' ss Seq
AAGGTGACT
5' ss Score
6.64
Exon sequences
Seq C1 exon
GGCAAAGATGGAGAACCTGGTCTTGAT
Seq A exon
GGCTTCCCTGGTCCTCGAGGCGAGAAGGGTGACCTGGGAGAAAAGGGAGAAAAG
Seq C2 exon
GGGGAAAAGGGAAAGAAAGGCAAAAGGGGGCCTAAAGGGGAGAAAGGAGAACAGGGCGCTCCTGGATTAGATGCACCCTGCCCGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058897-'42-39,'42-38,43-39
Average complexity
C3
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(8.8=100),PF0139113=Collagen=FE(10.7=100)
A:
PF0139113=Collagen=PD(9.9=50.0),PF0139113=Collagen=FE(22.7=100)
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAAAGATGGAGAACCTGGT
R:
GCAGGGTGCATCTAATCCAGG
Band lengths:
108-162
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: