MmuEX6099935 @ mm10
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:27986721-27990091:+
Coord C1 exon
chr2:27986721-27986774
Coord A exon
chr2:27989139-27989246
Coord C2 exon
chr2:27990038-27990091
Length
108 bp
Sequences
Splice sites
3' ss Seq
CTCCTCTTTTCTGATTGCAGGGG
3' ss Score
8.68
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
Exon sequences
Seq C1 exon
GGTGAAGACGGCTTCCCTGGGTTTAAAGGCGACATGGGAATAAAGGGTGACCGG
Seq A exon
GGGGAAATCGGCCCACCTGGTCCCCGAGGAGAAGATGGTCCTGAAGGTCCAAAGGGTCGAGGTGGTCCCAATGGTGATCCTGGTCCCCTGGGGCCCACTGGGGAAAAG
Seq C2 exon
GGAAAGCTTGGCGTGCCCGGATTACCGGGGTACCCAGGAAGACAAGGGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'36-37,'36-36,46-37=AN
Average complexity
A_S
Mappability confidence:
NA
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:
NO
A:
NO
C2:
PF0139113=Collagen=PU(17.9=77.8)
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:
CGGCTTCCCTGGGTTTAAAGG
R:
CTTTGGCCCTTGTCTTCCTGG
Band lengths:
100-208
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