DreEX0023254 @ danRer10
Exon Skipping
Gene
ENSDARG00000055009 | col4a1
Description
collagen, type IV, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-081105-114]
Coordinates
chr9:8685707-8687850:-
Coord C1 exon
chr9:8687815-8687850
Coord A exon
chr9:8687685-8687723
Coord C2 exon
chr9:8685707-8685799
Length
39 bp
Sequences
Splice sites
3' ss Seq
TCTTACTTGATGTTTTGCAGGGT
3' ss Score
8.81
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GGAAGACCAGGTGATCCTGGACAAAAAGGAGAGCCG
Seq A exon
GGTGACAAGCTGACCTTTATTGGTGAGAAAGGGGAAAAG
Seq C2 exon
GGACAAAGAGGTTTAACCGGCCCCCCAGGTCCTCCAGGAAGGTCAGAGGAATACGAAGGCCCTGCCACAACACTTTATCTTCCTGGACCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055009_MULTIEX1-5/6=4-6
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.913 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(17.7=100)
A:
PF0139113=Collagen=PD(19.4=52.2),PF0139113=Collagen=PU(1.8=4.3)
C2:
PF0139113=Collagen=FE(52.6=100)
Main Skipping Isoform:
NA
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:
CCTGGACAAAAAGGAGAGCCG
R:
CGGTGGTCCAGGAAGATAAAGTG
Band lengths:
114-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]