DreEX0023207 @ danRer10
Exon Skipping
Gene
ENSDARG00000069093 | col2a1a
Description
collagen, type II, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-980526-192]
Coordinates
chr8:21173360-21174158:+
Coord C1 exon
chr8:21173360-21173413
Coord A exon
chr8:21173508-21173552
Coord C2 exon
chr8:21174060-21174158
Length
45 bp
Sequences
Splice sites
3' ss Seq
GTCTGTTCATCTTTCCACAGGGT
3' ss Score
10.74
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGTCCTCGTGGTCTGCCCGGTGAGAGAGGTCGCCCTGGTGCAACTGGTGCTGCT
Seq A exon
GGTGCCCGTGGTAATGATGGTCTGCCTGGTCCTGCTGGTCCTCCT
Seq C2 exon
GGTGAAGCTGGTCCCACTGGGGCTCGTGGACCTGAGGGCGCACAGGGACCTCGTGGAGAGGCTGGTACACCTGGATCACCTGGACCCGCCGGTGCATCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069093_MULTIEX1-5/8=4-7
Average complexity
C2
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(25.8=100)
A:
PF0139113=Collagen=FE(21.2=100)
C2:
PF0139113=Collagen=PD(3.0=6.1),PF0139113=Collagen=FE(41.0=100),PF0139113=Collagen=PU(5.4=15.2)
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:
TGGTCTGCCCGGTGAGAG
R:
GGTCCAGGTGATCCAGGTGTA
Band lengths:
132-177
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]