MmuEX0012205 @ mm10
Exon Skipping
Gene
ENSMUSG00000016356 | Col20a1
Description
collagen, type XX, alpha 1 [Source:MGI Symbol;Acc:MGI:1920618]
Coordinates
chr2:181000893-181002367:+
Coord C1 exon
chr2:181000893-181001041
Coord A exon
chr2:181001214-181001343
Coord C2 exon
chr2:181002329-181002367
Length
130 bp
Sequences
Splice sites
3' ss Seq
GGGGCCTCCTCCTTCCACAGATC
3' ss Score
9.96
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
Exon sequences
Seq C1 exon
CTGCAGCAAGCAGAAGCCCCCCATCCAGCCTGGCCTTGTCCTCGGAGACCCCCAACAGCCTGCAGGTCAACTGGACACCACCAAGTGGCCATGTCCTCCATTACCGGCTCAACTACACACTGGCCTCAGGCTCTGGACCAGAGAAATCG
Seq A exon
ATCTCTGTACCAGGCACCAGGAGCCATGCCGTGCTTCGTGATCTGATGTCTGCCACGAAGTACAGGGTCCTGGTCTCAGCTGTCTACAGAGCAGGGGAGAGCATGGCAGTGTCTGCCACATACCGCACAG
Seq C2 exon
CAGCCTGCCCAGCCCTGCACCCGGACAGTTCCCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016356-'23-30,'23-27,24-30
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.330 A=0.041 C2=0.000
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(54.3=88.0)
A:
PF0004116=fn3=PD(43.2=79.5)
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:
CAGCAAGCAGAAGCCCCC
R:
GAGAGGGAACTGTCCGGGTG
Band lengths:
183-313
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