MmuEX0012251 @ mm10
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130570309-130575410:+
Coord C1 exon
chr3:130570309-130570335
Coord A exon
chr3:130572957-130573037
Coord C2 exon
chr3:130575375-130575410
Length
81 bp
Sequences
Splice sites
3' ss Seq
GCATTTGCTTTTGCATTTAGGGT
3' ss Score
8.91
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
Exon sequences
Seq C1 exon
GGGCCCCATGGACTTCCTGGACCAAAG
Seq A exon
GGTGAACCAGGGTTAAATGGTGTTAAAGGATTGAAGGGTGAACCAGGTCAAAAGGGTGACAGAGGACCCCTTGGTCTTCCA
Seq C2 exon
GGAGCATCTGGCTTAGACGGAAAGCCAGGATCCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058897-'48-52,'48-51,49-52
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.804 A=1.000 C2=0.787
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(11.8=100),PF0139113=Collagen=FE(8.8=100)
A:
PF0139113=Collagen=PD(9.0=29.6),PF0139113=Collagen=FE(43.3=100),PF0139113=Collagen=PU(24.1=74.1)
C2:
PF0139113=Collagen=PD(11.8=66.7),PF0139113=Collagen=FE(12.1=100)
Main Inclusion Isoform:
ENSMUST00000080335fB1095
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCCCCATGGACTTCCT
R:
CCGGGATCCTGGCTTTCCG
Band lengths:
63-144
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