MmuEX6073560 @ mm10
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114173350-114182666:+
Coord C1 exon
chr3:114173350-114173403
Coord A exon
chr3:114181342-114181395
Coord C2 exon
chr3:114182613-114182666
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTGTTATTGTCTTTTCTAGGGT
3' ss Score
11.76
5' ss Seq
GATGTAAGC
5' ss Score
6.16
Exon sequences
Seq C1 exon
GGGTTGCCAGGCCCACCAGGTGAAAAGGGCGAAAATGGAGACGTTGGCCCCATG
Seq A exon
GGTCCACCAGGTCCTCCTGGCCCACGAGGCCCTCAAGGTCCCAATGGAGCTGAT
Seq C2 exon
GGACCACAAGGACCCCCAGGCTCCATTGGTTCAGTTGGTGTTGTGGGAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'58-58,'58-57,59-58
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(19.5=100)
A:
PF0139113=Collagen=FE(27.4=100)
C2:
PF0139113=Collagen=PD(24.2=83.3),PF0139113=Collagen=PU(23.9=94.4)
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:
CAGGCCCACCAGGTGAAAAG
R:
TTGTCTCCCACAACACCAACTG
Band lengths:
100-154
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