DreEX0002989 @ danRer10
Exon Skipping
Gene
ENSDARG00000009194 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr19:38966538-38980820:-
Coord C1 exon
chr19:38980788-38980820
Coord A exon
chr19:38969389-38969424
Coord C2 exon
chr19:38966538-38966585
Length
36 bp
Sequences
Splice sites
3' ss Seq
TGGTTTTCTCTATTTTCCAGTGT
3' ss Score
8.99
5' ss Seq
AGTGTGGGT
5' ss Score
0.29
Exon sequences
Seq C1 exon
GCAATCCTCGGATCCAAAGAACTGGCGGAAAAA
Seq A exon
TGTGCAGGCTGTGTACTGCTCAGTGAGGAATCGAGT
Seq C2 exon
GTTATCCAGGAGGGTCAGTCTGGACTCAAGGGAGAAAAAGGAGATCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009194_CASSETTE9
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.877
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0139113=Collagen=PU(16.9=82.4)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAATCCTCGGATCCAAAGAACT
R:
CCGATCTCCTTTTTCTCCCTTGA
Band lengths:
81-117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]