MmuEX6099930 @ mm10
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:27995861-27997616:+
Coord C1 exon
chr2:27995861-27995914
Coord A exon
chr2:27996869-27996913
Coord C2 exon
chr2:27997563-27997616
Length
45 bp
Sequences
Splice sites
3' ss Seq
CCTTTTCTCTCCCACCACAGGGC
3' ss Score
11.06
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
Exon sequences
Seq C1 exon
GGCCCGCGGGGTGAACGAGGCCCACGAGGCATCACGGGGAAGCCTGGCCCTAAG
Seq A exon
GGCAACTCCGGAGGTGATGGCCCAGCTGGCCCTCCTGGTGAACGG
Seq C2 exon
GGACCCAACGGACCCCAAGGTCCCACCGGCTTTCCTGGACCCAAGGGTCCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'48-43,'48-42,51-43=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:
PF0139113=Collagen=FE(21.8=100)
A:
PF0139113=Collagen=PD(14.1=73.3)
C2:
NO
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:
GTGAACGAGGCCCACGAG
R:
GACCCTTGGGTCCAGGAAAGC
Band lengths:
93-138
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