MmuEX0012118 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113836054-113841371:+
Coord C1 exon
chr3:113836054-113836107
Coord A exon
chr3:113841089-113841104
Coord C2 exon
chr3:113841318-113841371
Length
16 bp
Sequences
Splice sites
3' ss Seq
TTATCAATTCATGCTTGCAGGCT
3' ss Score
7.52
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GGAAAACTTGGGGTTCCAGGATTGCCGGGATATCCAGGAAGACAAGGTCCAAAG
Seq A exon
GCTTTCAGATGTCACT
Seq C2 exon
GGATCCACTGGATTTCCTGGATTTCCAGGTGCCAACGGGGAGAAAGGTGCCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.978 A=0.000 C2=0.813
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(18.7=100)
A:
PF0139113=Collagen=PD(3.3=33.3)
C2:
PF0139113=Collagen=FE(18.7=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAAACTTGGGGTTCCAGGA
R:
CACCTTTCTCCCCGTTGGC
Band lengths:
103-119
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: