MmuEX6069069 @ mm10
Exon Skipping
Gene
ENSMUSG00000025650 | Col7a1
Description
collagen, type VII, alpha 1 [Source:MGI Symbol;Acc:MGI:88462]
Coordinates
chr9:108977365-108977856:+
Coord C1 exon
chr9:108977365-108977472
Coord A exon
chr9:108977643-108977714
Coord C2 exon
chr9:108977821-108977856
Length
72 bp
Sequences
Splice sites
3' ss Seq
CCTTGCCCCACTTTCTATAGGGT
3' ss Score
9.14
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
Exon sequences
Seq C1 exon
GGAGACTTGGGCCCCCCTGGTGCCCCCGGGGCTCCTGGTGTTGTTGGGTTCCCTGGTCAGACAGGACCTCGAGGAGAGACGGGCCAGCCAGGGCCTGTTGGAGAGAGG
Seq A exon
GGTCTGGCAGGCCCTCCAGGGAGAGAAGGTGCCCCAGGTCCCTTGGGACCACCTGGACCACCAGGGTCAGCG
Seq C2 exon
GGAGCACCTGGCGCCTCTGGACTCAAAGGAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025650-'108-119,'108-117,109-119
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(58.3=100),PF0139113=Collagen=PU(28.3=47.2)
A:
PF0139113=Collagen=PD(11.7=29.2),PF0139113=Collagen=FE(38.3=100)
C2:
PF0139113=Collagen=FE(18.3=100)
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:
CCGGGGCTCCTGGTGTTG
R:
CTTGTCTCCTTTGAGTCCAGAGG
Band lengths:
119-191
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