MmuEX6099908 @ mm10
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:28019937-28022334:+
Coord C1 exon
chr2:28019937-28019990
Coord A exon
chr2:28020768-28020803
Coord C2 exon
chr2:28022281-28022334
Length
36 bp
Sequences
Splice sites
3' ss Seq
CTGACCTTTGCTCTCTGCAGGGC
3' ss Score
10.73
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
Exon sequences
Seq C1 exon
GGCATCACAGGTCCTTCTGGCCCACTTGGGCCTCCTGGTCCTCCTGGCTTGCCG
Seq A exon
GGCCCTCCAGGTCCCAAAGGTGCTAAGGGCTCTTCG
Seq C2 exon
GGTCCCACCGGCCCGAAGGGTGAGGCAGGCCACCCAGGACTCCCCGGCCCACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'82-82,'82-81,83-82
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=PD(14.3=55.6),PF0139113=Collagen=FE(27.0=100)
A:
PF0139113=Collagen=FE(17.5=100)
C2:
PF0139113=Collagen=FE(27.0=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:
GCATCACAGGTCCTTCTGGC
R:
GGAGTCCTGGGTGGCCTG
Band lengths:
96-132
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