DreEX0022805 @ danRer10
Exon Skipping
Gene
ENSDARG00000026165 | col11a1a
Description
collagen, type XI, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-070209-167]
Coordinates
chr24:28697677-28716249:-
Coord C1 exon
chr24:28716142-28716249
Coord A exon
chr24:28715535-28715588
Coord C2 exon
chr24:28697677-28697730
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTCAATCTTTTTTTCTATAGGGC
3' ss Score
10.11
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
Exon sequences
Seq C1 exon
GGCCCGAAAGGTGAGAGAGGAGAGAAAGGTGAAGCTGGTCCCCCTGGTGCTGCTGGACCTGCAGGTCCCAAAGGACCCCCTGGAGATGATGGACCCAAGGGTAACCCT
Seq A exon
GGCCCTGTTGGTTTTCCTGGAGACCCAGGTCCACCTGGTGAGCCAGGTGTTGCT
Seq C2 exon
GGTCCTGCTGGTCAAAAAGGAGACACTGGCACGGTTGGACCTCCTGGGCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026165_MULTIEX1-36/42=35-42
Average complexity
C3
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=PU(42.6=80.6)
A:
PF0139113=Collagen=FE(25.0=100)
C2:
PF0139113=Collagen=FE(28.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTGAGAGAGGAGAGAAAGGTG
R:
CCGTGCCAGTGTCTCCTTTTT
Band lengths:
134-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]