DreEX0002990 @ danRer10
Exon Skipping
Gene
ENSDARG00000009194 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr19:38918621-38924876:-
Coord C1 exon
chr19:38924841-38924876
Coord A exon
chr19:38921167-38921283
Coord C2 exon
chr19:38918621-38918698
Length
117 bp
Sequences
Splice sites
3' ss Seq
ATGGGTATGACTGACTGTAGGAA
3' ss Score
2.35
5' ss Seq
CGGGTGAGA
5' ss Score
7.62
Exon sequences
Seq C1 exon
AATCTCCTTCCTCAGGATTCAGCTTCTCCAGGAAAG
Seq A exon
GAAGGCTGTGGCGATTGTTCCAAGGGTCTACCAGGTGTGCCTGGCACGGTTGGTGCAAAGGGCGAGAAGGGAGATCAGGGCAAACCTGGCGTTGTGCCCTTGGAAGGATGCGAACGG
Seq C2 exon
ACGGGTAACAGCGGTCCGTGTGTTGGCACACCGGGGGCACCTGGATTCCCAGGACAACCAGGAGTTAAAGGAGAGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009194_MULTIEX1-1/2=C1-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.755 A=0.901 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=PU(13.6=50.0)
A:
PF0139113=Collagen=PD(81.8=92.3)
C2:
PF0139113=Collagen=FE(39.7=100)
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:
TCCTCAGGATTCAGCTTCTCCA
R:
TGGCTCTCCTTTAACTCCTGGT
Band lengths:
106-223
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]