DreEX6035156 @ danRer10
Exon Skipping
Gene
ENSDARG00000055009 | col4a1
Description
collagen, type IV, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-081105-114]
Coordinates
chr9:8690958-8691828:-
Coord C1 exon
chr9:8691739-8691828
Coord A exon
chr9:8691584-8691628
Coord C2 exon
chr9:8690958-8691002
Length
45 bp
Sequences
Splice sites
3' ss Seq
TAATGATTTTTTTTTACCAGGGT
3' ss Score
7.27
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGTGAGGTTGGGCTCCCTGGTTTGATGGGCCTTGTTGGGTTTCCTGGAATGCAAGGTCATGAGGGCCCTCCAGGGTCAATGGGGCCAAAG
Seq A exon
GGTGACAGAGGGGAGATAGGAGCACCAGGAATTAAAGGAAGCAGA
Seq C2 exon
GGCCTACCTGGTCAAGCTGGTTTCCCAGGACGTCCAGGTATTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055009-'0-1,'0-0,1-1=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.767 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(48.3=96.7)
A:
PF0139113=Collagen=FE(23.3=100)
C2:
PF0139113=Collagen=FE(23.3=100),PF0139113=Collagen=PU(21.8=80.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGTTGGGCTCCCTGGTTT
R:
TGGAATACCTGGACGTCCTG
Band lengths:
132-177
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]