DreEX6073915 @ danRer10
Exon Skipping
Gene
ENSDARG00000009194 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr19:38916351-38920968:-
Coord C1 exon
chr19:38920930-38920968
Coord A exon
chr19:38918621-38918698
Coord C2 exon
chr19:38916351-38916395
Length
78 bp
Sequences
Splice sites
3' ss Seq
AACTCTCTCAATGTTTTTAGACG
3' ss Score
5.93
5' ss Seq
CCAGTGAGA
5' ss Score
3.73
Exon sequences
Seq C1 exon
TGTTTTGAGCTGCAGAGAGAGGAAACACCAAGCGGACCT
Seq A exon
ACGGGTAACAGCGGTCCGTGTGTTGGCACACCGGGGGCACCTGGATTCCCAGGACAACCAGGAGTTAAAGGAGAGCCA
Seq C2 exon
GGTCCTAGAGGGGAGAGAGGACCTCCTGGTACTCCTGGAAACCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009194-'53-56,'53-55,54-56=AN
Average complexity
A_C1
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=PU(9.5=46.2)
A:
PF0139113=Collagen=FE(39.7=100)
C2:
PF0139113=Collagen=FE(22.2=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGCTGCAGAGAGAGGAAAC
R:
CGGGTTTCCAGGAGTACCAGG
Band lengths:
79-157
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]