DreEX0023610 @ danRer10
Exon Skipping
Gene
ENSDARG00000037845 | col9a3
Description
collagen, type IX, alpha 3 [Source:ZFIN;Acc:ZDB-GENE-030131-9799]
Coordinates
chr23:486638-489749:-
Coord C1 exon
chr23:489717-489749
Coord A exon
chr23:487399-487545
Coord C2 exon
chr23:486638-486692
Length
147 bp
Sequences
Splice sites
3' ss Seq
GTTTACTCTCCCTGCTATAGCCT
3' ss Score
6.85
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGTCCGTATGGTCCTGTCGGACAGAAGGGAGAG
Seq A exon
CCTGGTAAACATGGTGAACTCGGATCCAAAGGAGTCGTAGGACCCCAAGGAGAGACCGGAGCTAGAGGAGTGCCCGGAAAACCAGGACCGATGGGACTGCAGGGAGAACAGGGCTTCCCCGGGGTTGCCGGAAAAACAGGAGTTCCT
Seq C2 exon
GGCAAGCTGGCGAGTGAGCAGCACATCAGGGAACTGTGTGGATCAATGATTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037845-'31-34,'31-33,33-34
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.871 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(13.5=100),PF0139113=Collagen=PU(15.2=90.9)
A:
PF0139113=Collagen=PD(14.9=22.4),PF0139113=Collagen=FE(72.7=100)
C2:
PF0139113=Collagen=PD(7.6=26.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCGTATGGTCCTGTCGGA
R:
ATCATTGATCCACACAGTTCCCTG
Band lengths:
82-229
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]