RnoEX6020703 @ rn6
Exon Skipping
Gene
ENSRNOG00000010326 | Col20a1
Description
collagen type XX alpha 1 chain [Source:RGD Symbol;Acc:1563901]
Coordinates
chr3:176517660-176521653:+
Coord C1 exon
chr3:176517660-176517713
Coord A exon
chr3:176521433-176521528
Coord C2 exon
chr3:176521600-176521653
Length
96 bp
Sequences
Splice sites
3' ss Seq
ATCCCTCCTTGTGTCTTCAGGGA
3' ss Score
10.82
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
Exon sequences
Seq C1 exon
GGCCTCCCTGGAAGGAATGGCACTCCAGGACAGCAGGGACACCCAGGACCCAAG
Seq A exon
GGAGAGCCTGGCCCACCTGGACAAACAGGACCCGAAGGCCCTGGAGGTCAGCAGGGGTCACCAGGGACCCAGGGCCGTGCAGTCCAGGGACCCATG
Seq C2 exon
GGGCCACCAGGAGCCAAAGGAGAGAAGGGGGATCACGGCCTCCCGGGCTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010326-'32-43,'32-42,33-43=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(10.9=18.8)
C2:
PF0139113=Collagen=FE(30.9=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:
GGCCTCCCTGGAAGGAATGG
R:
AGGCCGTGATCCCCCTTC
Band lengths:
95-191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]