MmuEX6107614 @ mm9
Exon Skipping
Gene
ENSMUSG00000016356 | Col20a1
Description
collagen, type XX, alpha 1 [Source:MGI Symbol;Acc:MGI:1920618]
Coordinates
chr2:180744082-180747994:+
Coord C1 exon
chr2:180744082-180744135
Coord A exon
chr2:180747772-180747867
Coord C2 exon
chr2:180747941-180747994
Length
96 bp
Sequences
Splice sites
3' ss Seq
GCCCCTCCTTGTGTCTCCAGGGG
3' ss Score
10.9
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
Exon sequences
Seq C1 exon
GGTCTCCCTGGAAGGAACGGCCCTCCAGGACAGCAGGGGCACCCAGGGCCCAAG
Seq A exon
GGGGAGCCGGGCCCACCTGGACAAACAGGACCTGAAGGCCCTGGAGGTCAGCAGGGGTCACCAGGGACCCAGGGCCGCGCAGTCCAGGGACCCATG
Seq C2 exon
GGGCCACCAGGAGCCAAAGGAGAGAAGGGGGATCAGGGACTTTCAGGCTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016356-'28-31,'28-30,29-31=AN
Average complexity
A_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(28.8=100)
A:
PF0139113=Collagen=PD(47.5=87.5),PF0139113=Collagen=PU(10.5=18.8)
C2:
PF0139113=Collagen=FE(29.8=100)
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:
GGTCTCCCTGGAAGGAACGG
R:
GCAAGCCTGAAAGTCCCTGAT
Band lengths:
106-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: