MmuEX6099905 @ mm10
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:28024605-28029035:+
Coord C1 exon
chr2:28024605-28024860
Coord A exon
chr2:28025593-28025705
Coord C2 exon
chr2:28028967-28029035
Length
113 bp
Sequences
Splice sites
3' ss Seq
TCCCTGTCTCTGAAATCCAGGCG
3' ss Score
6.41
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
Exon sequences
Seq C1 exon
GGCCCTCCGGGTGAGGTCATCCAGCCCCTGCCAATCCAGGCCTCCAGGACTCGGCGGAACATTGATGCCAGCCAGCTCCTGGACGATGGGGCTGGGGAGAGCTACGTGGATTATGCAGATGGCATGGAAGAGATCTTTGGTTCCCTCAACTCCCTGAAGCTGGAGATTGAACAGATGAAGCGACCACTGGGCACCCAGCAGAACCCAGCCCGTACCTGCAAGGATCTACAGCTCTGTCATCCTGACTTCCCAGATG
Seq A exon
GCGAATACTGGGTCGATCCCAACCAAGGGTGCTCCAGGGACTCCTTCAAAGTCTACTGCAATTTCACAGCTGGAGGGTCCACGTGCGTCTTCCCTGACAAGAAGTCTGAGGGA
Seq C2 exon
GCCAGAATCACTTCTTGGCCCAAAGAAAACCCAGGTTCCTGGTTCAGTGAATTCAAGCGTGGGAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'86-87,'86-86,87-87
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.581 A=0.026 C2=0.130
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(12.7=9.3),PF0141013=COLFI=PU(12.7=31.4)
A:
PF0141013=COLFI=FE(17.5=100)
C2:
PF0141013=COLFI=FE(10.4=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACTCGGCGGAACATTGATG
R:
CCTGGGTTTTCTTTGGGCCAA
Band lengths:
245-358
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