MmuEX6074087 @ mm10
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130568242-130575410:+
Coord C1 exon
chr3:130568242-130568292
Coord A exon
chr3:130570309-130570335
Coord C2 exon
chr3:130575375-130575410
Length
27 bp
Sequences
Splice sites
3' ss Seq
GTGCTTTTTCCCATTTCTAGGGG
3' ss Score
10.94
5' ss Seq
AAGGTACCC
5' ss Score
9.16
Exon sequences
Seq C1 exon
ATCATAGGCCCACCAGGCCCTCCAGGTCCCCATGGCCCACCTGGTCCCATG
Seq A exon
GGGCCCCATGGACTTCCTGGACCAAAG
Seq C2 exon
GGAGCATCTGGCTTAGACGGAAAGCCAGGATCCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058897-'44-54,'44-50,48-54=AN
Average complexity
A_C2
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.804 C2=0.787
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(23.5=100),PF0139113=Collagen=PU(15.4=82.4)
A:
PF0139113=Collagen=FE(11.8=100),PF0139113=Collagen=FE(8.8=100)
C2:
PF0139113=Collagen=PD(11.8=66.7),PF0139113=Collagen=FE(12.1=100)
Main Skipping Isoform:
NA
Other Skipping 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:
CCCTCCAGGTCCCCATGG
R:
GGGATCCTGGCTTTCCGTCTA
Band lengths:
68-95
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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