DreEX6073929 @ danRer10
Exon Skipping
Gene
ENSDARG00000009194 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr19:38890038-38895088:-
Coord C1 exon
chr19:38895053-38895088
Coord A exon
chr19:38893804-38893848
Coord C2 exon
chr19:38890038-38890235
Length
45 bp
Sequences
Splice sites
3' ss Seq
CTAATTATTTGTAACCGCAGGGA
3' ss Score
5.83
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
Exon sequences
Seq C1 exon
GGTGAACCAGGAAGTGACGGATCTGCAGGTAAAGAT
Seq A exon
GGAGCCCCGGGCCTGCCAGGAGAGCCTGGTCCACAGGGAGTAAAG
Seq C2 exon
GGTGATGCAGGGGCTGAGGGGCAGAGGGGGCCCCCGGGAGAGCGTGGACGTCCCGGACCACCAGGAGGAGGCTTAGGTTTTGGCTCCAAAGGACCAGAAGGGATCATAGGGCCAGCCGGGCCCCGTGGTGAGAGGGGAAGCCCTGGTTCACCCGGACAAGCTGGTGCCCCTGGATTACCAGGAATACCAGGGAATGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009194-'74-77,'74-76,75-77=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(18.6=100)
A:
PF0139113=Collagen=FE(23.7=100)
C2:
PF0139113=Collagen=PD(42.4=37.9),PF0139113=Collagen=PU(93.3=84.8)
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:
CAGGAAGTGACGGATCTGCAG
R:
TGGCCCTATGATCCCTTCTGG
Band lengths:
143-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]