GgaEX1017043 @ galGal4
Exon Skipping
Gene
ENSGALG00000005628 | COL9A3
Description
collagen alpha-3(IX) chain precursor [Source:RefSeq peptide;Acc:NP_990636]
Coordinates
chr20:8716549-8717525:+
Coord C1 exon
chr20:8716549-8716581
Coord A exon
chr20:8716702-8716848
Coord C2 exon
chr20:8717471-8717525
Length
147 bp
Sequences
Splice sites
3' ss Seq
ATTATTTTTCTTTATTATAGCCA
3' ss Score
7.4
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGTCCCTTTGGTCCTCCCGGCCAAAAAGGAGAG
Seq A exon
CCAGGAAAAAGAGGAGAACTGGGTCCAAAAGGTGCTCAAGGACCCAATGGGACAGCTGGAGCTCCAGGGATCCCAGGACACCCAGGGCCCATGGGCCATCAGGGGGAGCAGGGCGTTCCTGGCATCACAGGCAAACCGGGGCCTCCT
Seq C2 exon
GGCAAAGAGGCCAGCGAGCAACATATAAGAGAACTCTGTGGGGAAATGATAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005628-'30-27,'30-26,32-27
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=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(11.1=63.6)
A:
PF0139113=Collagen=FE(76.2=100)
C2:
PF0139113=Collagen=PD(7.9=26.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGGTCCTCCCGGCCAAAAA
R:
CGTTTATCATTTCCCCACAGAGT
Band lengths:
82-229
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]