MmuEX0012313 @ mm9
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:27863268-27865597:+
Coord C1 exon
chr2:27863268-27863375
Coord A exon
chr2:27864628-27864681
Coord C2 exon
chr2:27865544-27865597
Length
54 bp
Sequences
Splice sites
3' ss Seq
TCCTCCCTGTCCATCCCCAGGGA
3' ss Score
10.71
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
Exon sequences
Seq C1 exon
GGCGAGAAAGGTCCACAAGGCCCAGCTGGCCGAGATGGCCTCCAAGGTCCCGTGGGGCTCCCTGGACCAGCCGGCCCAGTGGGTCCTCCTGGAGAAGATGGAGATAAG
Seq A exon
GGAGAGATCGGAGAGCCAGGGCAGAAGGGAAGCAAGGGCGACAAAGGCGAGCAG
Seq C2 exon
GGTCCTCCTGGGCCTACCGGTCCTCAAGGCCCGATTGGACAGCCAGGCCCTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'42-43,'42-42,43-43
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=FE(36.5=100)
A:
PF0139113=Collagen=PD(2.1=11.1)
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:
CGAGAAAGGTCCACAAGGCC
R:
CTGTCCAATCGGGCCTTGAG
Band lengths:
148-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: