MmuEX6099925 @ mm10
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:28002483-28004095:+
Coord C1 exon
chr2:28002483-28002590
Coord A exon
chr2:28003861-28003950
Coord C2 exon
chr2:28004042-28004095
Length
90 bp
Sequences
Splice sites
3' ss Seq
ACCCTGGCTCTCTTTTTCAGGGT
3' ss Score
12.28
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
Exon sequences
Seq C1 exon
GGTCCCACAGGAGAGACGGGCCCCATGGGTGAGCGTGGCCATCCTGGTCCTCCAGGCCCTCCTGGTGAACAGGGCCTCCCAGGTGCTGCTGGGAAAGAAGGAACGAAG
Seq A exon
GGTGACCCAGGTCCTGCTGGCCTCCCTGGGAAGGATGGCCCTCCAGGATTGCGTGGATTCCCTGGGGACCGAGGGCTACCTGGCCCCGTG
Seq C2 exon
GGAGCCCTTGGACTCAAAGGCAGTGAAGGCCCCCCTGGCCCACCAGGTCCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'58-50,'58-49,59-50
Average complexity
S
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=PU(6.7=13.9)
A:
PF0139113=Collagen=FE(38.7=100),PF0139113=Collagen=PU(2.1=6.7)
C2:
PF0139113=Collagen=FE(22.7=100),PF0139113=Collagen=FE(17.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCACAGGAGAGACGGG
R:
GCCTTCACTGCCTTTGAGTCC
Band lengths:
137-227
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