MmuEX6069107 @ mm10
Exon Skipping
Gene
ENSMUSG00000025650 | Col7a1
Description
collagen, type VII, alpha 1 [Source:MGI Symbol;Acc:MGI:88462]
Coordinates
chr9:108967771-108968375:+
Coord C1 exon
chr9:108967771-108967806
Coord A exon
chr9:108968006-108968050
Coord C2 exon
chr9:108968304-108968375
Length
45 bp
Sequences
Splice sites
3' ss Seq
ACTTTCTTCTCTGTCACTAGGGT
3' ss Score
10.9
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
Exon sequences
Seq C1 exon
GGTGAAGCTGGAGAGAAAGGTGACGAGGGGATCCCG
Seq A exon
GGTGAGCCAGGTTTGCCTGGAAAAGCAGGTGAACGTGGCCTCCGG
Seq C2 exon
GGGGCACCTGGGCCTCGGGGGCCTGTGGGTGAGAAGGGGGACCAGGGAGATCCTGGAGAAGACGGACGGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025650-'59-66,'59-65,60-66
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:
NO
A:
PF0139113=Collagen=PU(15.9=73.3)
C2:
PF0139113=Collagen=FE(33.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAAGCTGGAGAGAAAGGTG
R:
ATTCCGTCCGTCTTCTCCAGG
Band lengths:
108-153
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