MmuEX6099907 @ mm10
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:28020768-28024860:+
Coord C1 exon
chr2:28020768-28020803
Coord A exon
chr2:28022281-28022334
Coord C2 exon
chr2:28024605-28024860
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTTTCTTGTTTTCCCTCCAGGGT
3' ss Score
12.28
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
GGCCCTCCAGGTCCCAAAGGTGCTAAGGGCTCTTCG
Seq A exon
GGTCCCACCGGCCCGAAGGGTGAGGCAGGCCACCCAGGACTCCCCGGCCCACCT
Seq C2 exon
GGCCCTCCGGGTGAGGTCATCCAGCCCCTGCCAATCCAGGCCTCCAGGACTCGGCGGAACATTGATGCCAGCCAGCTCCTGGACGATGGGGCTGGGGAGAGCTACGTGGATTATGCAGATGGCATGGAAGAGATCTTTGGTTCCCTCAACTCCCTGAAGCTGGAGATTGAACAGATGAAGCGACCACTGGGCACCCAGCAGAACCCAGCCCGTACCTGCAAGGATCTACAGCTCTGTCATCCTGACTTCCCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'83-83,'83-82,84-83
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=0.581
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(17.5=100)
A:
PF0139113=Collagen=FE(27.0=100)
C2:
PF0139113=Collagen=PD(12.7=9.3),PF0141013=COLFI=PU(12.7=31.4)


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:
TCCAGGTCCCAAAGGTGCTAA
R:
AATCCACGTAGCTCTCCCCAG
Band lengths:
143-197
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