MmuEX6107616 @ mm10
Exon Skipping
Gene
ENSMUSG00000016356 | Col20a1
Description
collagen, type XX, alpha 1 [Source:MGI Symbol;Acc:MGI:1920618]
Coordinates
chr2:181007796-181009430:+
Coord C1 exon
chr2:181007796-181007873
Coord A exon
chr2:181008520-181008606
Coord C2 exon
chr2:181009377-181009430
Length
87 bp
Sequences
Splice sites
3' ss Seq
AATGATTCCTTTTCTTCCAGAGG
3' ss Score
7.96
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
Exon sequences
Seq C1 exon
TTCCAGCTCCAGATGTTGCAAATCGTGTGCAGTGATACCTGGGCAGACAAGGACAGGTGTTGTGAGATTCCTGCACTG
Seq A exon
AGGGATGGAGAGACGTGCCCGGCCTTCCCTTCAGCCTGTGCCTACTCATCTGAGACCCCTGGGCCACCAGGGCCCCAAGGCCCTCCG
Seq C2 exon
GGTCTCCCTGGAAGGAACGGCCCTCCAGGACAGCAGGGGCACCCAGGGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016356-'31-52,'31-41,35-52=AN
Average complexity
A_S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=0.678 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
PF0139113=Collagen=PU(18.6=37.9)
C2:
PF0139113=Collagen=FE(28.8=100)
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:
TCCAGCTCCAGATGTTGCAAA
R:
GTGCCCCTGCTGTCCTGG
Band lengths:
119-206
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