RnoEX0023013 @ rn6
Exon Skipping
Gene
ENSRNOG00000010326 | Col20a1
Description
collagen type XX alpha 1 chain [Source:RGD Symbol;Acc:1563901]
Coordinates
chr3:176500315-176501789:+
Coord C1 exon
chr3:176500315-176500470
Coord A exon
chr3:176500700-176500825
Coord C2 exon
chr3:176501631-176501789
Length
126 bp
Sequences
Splice sites
3' ss Seq
ACTCCTCCCCCTGCCTCCAGGAG
3' ss Score
11.58
5' ss Seq
TAGGTAAGC
5' ss Score
8.89
Exon sequences
Seq C1 exon
TTGAGGATCTAAAGAGCCAATCTTTGGGCAGAGGAAGCCGGAGGCTGGCAGGAGCCACCCTGGAGCCTCCCTCCTTCCCTCTGAGGGACCCAGACTCTGAGAAAACATCTGAGCCCAGCATTGCCTTCACCTCAAGCAGGGACCTTCCCATTCTCG
Seq A exon
GAGTGGCCAGTAAGGATCAGAGGAAACTCAAGCAGGGCCTTGGAGTACAAGACTCTGCCCAGCCAACCCCAGACCTGGAGAGGCAGAGCCACACCGCAGTCTCTGTGGGAAAGCGAGGGAAGCTAG
Seq C2 exon
ATGACCCCCAGTTCCAGTGCACACCCCCAACACCTGCTGACATAATCTTCCTGGTGGATGGGTCCTGGAGCATCGGCCACAACAACTTTCAGCAGGTGAAAGACTTCCTGGCTAGCATCATCACACACTTTGCAATAGGACCAGATAAAGTCCAAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010326_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.566 A=0.721 C2=0.111
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0009223=VWA=PU(23.1=74.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATCTTTGGGCAGAGGAAGC
R:
GCCAGGAAGTCTTTCACCTGC
Band lengths:
251-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]