GgaEX6034396 @ galGal4
Exon Skipping
Gene
ENSGALG00000010521 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr4:37078073-37083834:+
Coord C1 exon
chr4:37078073-37078108
Coord A exon
chr4:37078938-37078991
Coord C2 exon
chr4:37083781-37083834
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTCTTGGCTTCCCTTCACAGGGT
3' ss Score
10.67
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGAGCATCTGGCTTAGACGGAAAGCCAGGACCCCGG
Seq A exon
GGTGTAGATGGCCCAGTTGGTCCCCACGGCCCTGCAGGCCCTAAAGGAGACAGA
Seq C2 exon
GGTGAAAAGGGAACTGTAGGTGACCCTGGACCCAGAGGACCCTATGGCTTGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010521-'36-35,'36-34,37-35=AN
Average complexity
A_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=PD(12.9=66.7),PF0139113=Collagen=FE(12.8=100)
A:
PF0139113=Collagen=FE(19.8=100)
C2:
PF0139113=Collagen=FE(19.8=100),PF0139113=Collagen=PU(15.3=61.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATCTGGCTTAGACGGAAAGC
R:
CAAGCCATAGGGTCCTCTGGG
Band lengths:
84-138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]