RnoEX0023016 @ rn6
Exon Skipping
Gene
ENSRNOG00000010326 | Col20a1
Description
collagen type XX alpha 1 chain [Source:RGD Symbol;Acc:1563901]
Coordinates
chr3:176515536-176517713:+
Coord C1 exon
chr3:176515536-176515613
Coord A exon
chr3:176516277-176516363
Coord C2 exon
chr3:176517660-176517713
Length
87 bp
Sequences
Splice sites
3' ss Seq
AATGATCTCTTTTCTTCCAGAGG
3' ss Score
9.11
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
Exon sequences
Seq C1 exon
TTCCAGCTCCAGATGTTGCAGATCATGTGCAGCGATACGTGGGCGGACAAGGACAGGTGCTGCGAGCTTCCTGCATTG
Seq A exon
AGGGATGGAGAGACATGCCCGGCCTTCCCTTTAGCCTGTACCTACTCATCTGAGACCCCTGGGCCACCAGGGCCCCAAGGCCCTCCA
Seq C2 exon
GGCCTCCCTGGAAGGAATGGCACTCCAGGACAGCAGGGACACCCAGGACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010326_CASSETTE4
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=0.655 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 Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCAGCTCCAGATGTTGCAG
R:
CTTGGGTCCTGGGTGTCCC
Band lengths:
132-219
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]