MmuEX6069071 @ mm10
Exon Skipping
Gene
ENSMUSG00000025650 | Col7a1
Description
collagen, type VII, alpha 1 [Source:MGI Symbol;Acc:MGI:88462]
Coordinates
chr9:108977080-108977472:+
Coord C1 exon
chr9:108977080-108977115
Coord A exon
chr9:108977199-108977258
Coord C2 exon
chr9:108977365-108977472
Length
60 bp
Sequences
Splice sites
3' ss Seq
GACCCCTCTTTCCCTCAAAGGGT
3' ss Score
8.46
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GGTCAAAAAGGGGCTCCAGGACTCAAAGGTCTTAAG
Seq A exon
GGTGAGCCAGGCATTGGGGTTCAGGGCCCCCCTGGCCCAAGTGGTCCTCCAGGTATGAAG
Seq C2 exon
GGAGACTTGGGCCCCCCTGGTGCCCCCGGGGCTCCTGGTGTTGTTGGGTTCCCTGGTCAGACAGGACCTCGAGGAGAGACGGGCCAGCCAGGGCCTGTTGGAGAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025650-'105-116,'105-115,107-116
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(20.8=100)
A:
PF0139113=Collagen=PD(9.4=25.0),PF0139113=Collagen=PU(25.0=75.0)
C2:
PF0139113=Collagen=FE(58.3=100),PF0139113=Collagen=PU(28.3=47.2)
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:
CAAAAAGGGGCTCCAGGACTC
R:
CTCTCTCCAACAGGCCCTGG
Band lengths:
140-200
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