MmuEX0012245 @ mm10
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130439313-130476476:+
Coord C1 exon
chr3:130439313-130439339
Coord A exon
chr3:130474808-130474867
Coord C2 exon
chr3:130476369-130476476
Length
60 bp
Sequences
Splice sites
3' ss Seq
GCGTTGTGTCTCATCCATAGGGC
3' ss Score
10.74
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
Exon sequences
Seq C1 exon
GGAGAACAAGGTGATCAGGGACCTCGG
Seq A exon
GGCCTGCCAGGCTTCCCCACAGTTGCTGCCCTCCACAGCAATCAGATCCTCACTGTCAAG
Seq C2 exon
GGTGACCAAGGACAGGCAGGGCCTCCAGGACCTCCAGGCCCTCCTGGTCCAAGAGGCCCACCTGGGGACACAGGAAAGGACGGCCCCCGAGGAATGCCAGGAGTACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058897-'16-25,'16-23,20-25
Average complexity
C3
Mappability confidence:
92%=86=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(17.0=100)
A:
PF0139113=Collagen=PD(16.1=45.0),PF0139113=Collagen=PU(1.6=5.0)
C2:
PF0139113=Collagen=FE(53.8=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACAAGGTGATCAGGGACCT
R:
AGGTACTCCTGGCATTCCTCG
Band lengths:
133-193
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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