MmuEX0012218 @ mm9
Exon Skipping
Gene
ENSMUSG00000016356 | Col20a1
Description
collagen, type XX, alpha 1 [Source:MGI Symbol;Acc:MGI:1920618]
Coordinates
chr2:180741831-180742578:+
Coord C1 exon
chr2:180741831-180741940
Coord A exon
chr2:180742272-180742430
Coord C2 exon
chr2:180742501-180742578
Length
159 bp
Sequences
Splice sites
3' ss Seq
ACTTACTGTGGTTTCTGCAGGTA
3' ss Score
10.34
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
Exon sequences
Seq C1 exon
CTGGCAGAAAGTCTCTGACTTACTTCAACCATGATTCCCGGGCAGCCTTGCAGGAGGTCACCTTTGACCTGCAGGATGCAAAGAAGATCTTCTTTGGAAGCTTCCACAAG
Seq A exon
GTACATATAGCTGTAGGCCACTCTAAGGTCAGACTCTATGTGGACTGTCGGAAGGTGGCCGAGCGTCCCATTGGGGATGCTGGCAGCCCACCCACAGGTGGTTTCATCACACTAGGGAGGCTAGCCAAGGCCAGAGGGCCACGGAGCAGCTCAGCCACA
Seq C2 exon
TTCCAGCTCCAGATGTTGCAAATCGTGTGCAGTGATACCTGGGCAGACAAGGACAGGTGTTGTGAGATTCCTGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016356-'24-27,'24-26,25-27=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=0.000 A=0.338 C2=0.038
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
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:
AGTCTCTGACTTACTTCAACCATGA
R:
AGTGCAGGAATCTCACAACACC
Band lengths:
178-337
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