MmuEX0012243 @ mm9
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130288601-130294750:+
Coord C1 exon
chr3:130288601-130288654
Coord A exon
chr3:130292329-130292415
Coord C2 exon
chr3:130294712-130294750
Length
87 bp
Sequences
Splice sites
3' ss Seq
TTAAACCCTTGTATCCACAGGGG
3' ss Score
9.59
5' ss Seq
TTGGTATGT
5' ss Score
7.12
Exon sequences
Seq C1 exon
GGCTTCCCTGGTCCTCGAGGCGAGAAGGGTGACCTGGGAGAAAAGGGAGAAAAG
Seq A exon
GGGGAAAAGGGAAAGAAAGGCAAAAGGGGGCCTAAAGGGGAGAAAGGAGAACAGGGCGCTCCTGGATTAGATGCACCCTGCCCGTTG
Seq C2 exon
GGACCTGATGGGTTACCTATGCCTGGCTGCTGGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058897-'43-41,'43-39,44-41
Average complexity
ME(39_44-40_45[100=97])
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(9.9=50.0),PF0139113=Collagen=FE(22.7=100)
A:
NO
C2:
PF0139113=Collagen=PD(8.0=46.2)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTCCCTGGTCCTCGAG
R:
CCAGCAGCCAGGCATAGGTAA
Band lengths:
87-174
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