MmuEX6069098 @ mm10
Exon Skipping
Gene
ENSMUSG00000025650 | Col7a1
Description
collagen, type VII, alpha 1 [Source:MGI Symbol;Acc:MGI:88462]
Coordinates
chr9:108969659-108970417:+
Coord C1 exon
chr9:108969659-108969739
Coord A exon
chr9:108969951-108969986
Coord C2 exon
chr9:108970355-108970417
Length
36 bp
Sequences
Splice sites
3' ss Seq
AACTTTGAATCTCTTCTTAGGGT
3' ss Score
8.35
5' ss Seq
GATGTAAGT
5' ss Score
9.11
Exon sequences
Seq C1 exon
GGTGATCGGGGACCCCCAGGGCTGGATGGCCGGAGTGGGCTGGATGGGAAACCCGGAGCCCCTGGCCCCCCAGGGCTACAT
Seq A exon
GGTGCTTCAGGCAAAGCTGGGGACCCGGGGAGAGAT
Seq C2 exon
GGACTTCCAGGCCTTCGAGGAGAACATGGCCCCCCTGGTCCCCCTGGCCCTCCTGGAGTTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025650-'59-88,'59-77,70-88=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=PD(17.5=40.7),PF0139113=Collagen=FE(29.2=100)
A:
PF0139113=Collagen=FE(12.4=100)
C2:
PF0139113=Collagen=FE(22.5=100),PF0139113=Collagen=PU(6.4=23.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGTGGGCTGGATGGGAAA
R:
GGAACTCCAGGAGGGCCAG
Band lengths:
112-148
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