MmuEX6069128 @ mm10
Exon Skipping
Gene
ENSMUSG00000025650 | Col7a1
Description
collagen, type VII, alpha 1 [Source:MGI Symbol;Acc:MGI:88462]
Coordinates
chr9:108962985-108963280:+
Coord C1 exon
chr9:108962985-108963011
Coord A exon
chr9:108963103-108963147
Coord C2 exon
chr9:108963218-108963280
Length
45 bp
Sequences
Splice sites
3' ss Seq
TCACTGATCACTCCTTTTAGGGA
3' ss Score
8.67
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
Exon sequences
Seq C1 exon
GGCCAGAAGGGGGAGCCTGGAGTAACG
Seq A exon
GGACTGCAAGGACAGGCTGGACCTCCTGGCCCCCCTGGTCTCCCG
Seq C2 exon
GGCAGGACCGGTGCTCCAGGCCCGCAAGGTCCTCCTGGAAGTACCCAGGCAAAAGGCGAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025650-'35-48,'35-38,36-48=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=FE(11.8=100)
A:
PF0139113=Collagen=FE(20.6=100)
C2:
PF0139113=Collagen=FE(29.4=100),PF0139113=Collagen=PU(8.1=23.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGGGGGAGCCTGGAGTAAC
R:
CTCTCGCCTTTTGCCTGGGTA
Band lengths:
84-129
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