BtaEX0009635 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000004582 | COL20A1
Description
collagen, type XX, alpha 1 [Source:HGNC Symbol;Acc:HGNC:14670]
Coordinates
chr13:54738786-54740119:-
Coord C1 exon
chr13:54740039-54740119
Coord A exon
chr13:54739446-54739532
Coord C2 exon
chr13:54738786-54738839
Length
87 bp
Sequences
Splice sites
3' ss Seq
GGGGGTCTCCTTTCTCCCAGAAG
3' ss Score
6.12
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
Exon sequences
Seq C1 exon
AAGTTCCAGCTCCAGGTGCTACAGCTCGTGTGCAATGACTCGTGGGCAGAGGAGGACAGGTGCTGTGAGCTCCCAGCATCG
Seq A exon
AAGGAGGGAGAGTCCTGTCCTGCCTTCCCATCTGCCTGTGCATGTTCCTCACAGACCCCTGGGCCCCCAGGCCCCCAAGGACCTCCG
Seq C2 exon
GGCCTCCCCGGGCGGAACGGAGCCCCAGGAGAGCAAGGCTTCCCAGGGCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004582-'34-34,'34-32,35-34
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=0.621 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 Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTTCCAGCTCCAGGTGCTA
R:
CTGGGAAGCCTTGCTCTCCT
Band lengths:
127-214
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development