MmuEX0012210 @ mm10
Exon Skipping
Gene
ENSMUSG00000016356 | Col20a1
Description
collagen, type XX, alpha 1 [Source:MGI Symbol;Acc:MGI:1920618]
Coordinates
chr2:181013236-181013923:+
Coord C1 exon
chr2:181013236-181013289
Coord A exon
chr2:181013390-181013443
Coord C2 exon
chr2:181013870-181013923
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTATCTCTGTTCCCTCACAGGGC
3' ss Score
11.12
5' ss Seq
AAGGTACTG
5' ss Score
8.56
Exon sequences
Seq C1 exon
GGGCCACCAGGAGCCAAAGGAGAGAAGGGGGATCAGGGACTTTCAGGCTTGCAG
Seq A exon
GGCCTCTCTGGCCAGCAAGGCATCCCTGGGAAAACTGGCCTACAGGGACCAAAG
Seq C2 exon
GGCATGAGAGGACTGGAGGGACCTGCTGGCCTGCCAGGACCACCTGGCCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016356-'38-48,'38-47,39-48
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(32.1=100)
A:
PF0139113=Collagen=FE(32.1=100)
C2:
PF0139113=Collagen=PD(17.0=50.0),PF0139113=Collagen=PU(28.8=94.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACCAGGAGCCAAAGGAGAG
R:
CAGGCCAGCAGGTCCCTC
Band lengths:
84-138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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