DreEX0023163 @ danRer10
Exon Skipping
Gene
ENSDARG00000020007 | col1a2
Description
collagen, type I, alpha 2 [Source:ZFIN;Acc:ZDB-GENE-030131-8415]
Coordinates
chr19:41408649-41410431:+
Coord C1 exon
chr19:41408649-41408756
Coord A exon
chr19:41408901-41408954
Coord C2 exon
chr19:41410378-41410431
Length
54 bp
Sequences
Splice sites
3' ss Seq
TACATTTATCTGATATACAGGGT
3' ss Score
4.54
5' ss Seq
CGTGTAAGT
5' ss Score
8.58
Exon sequences
Seq C1 exon
GGAGAGCCTGGTGCAGTTGGACCTGCTGGTGCCCCTGGACCACAGGGAGCTGCTGGTATGCCTGGTGAGCGTGGTGCTGCTGGCACCCCTGGAGCTAAGGGAGAGAAG
Seq A exon
GGTGAGGCTGGATACAGAGGACTGGAGGGCAATGCTGGAAAAGATGGTGCCCGT
Seq C2 exon
GGTGAGACTGGCTCCTTTGGTCCTCCTGGACCTGCTGGTCCTCGTGGTGCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020007_MULTIEX1-9/24=8-11
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(29.9=80.6),PF0139113=Collagen=FE(37.2=100)
A:
PF0139113=Collagen=FE(20.5=100),PF0139113=Collagen=PU(12.4=61.1)
C2:
PF0139113=Collagen=PD(12.0=55.6),PF0139113=Collagen=FE(19.1=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:
GAGAGCCTGGTGCAGTTGGA
R:
GAGGACCAAAGGAGCCAGTCT
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]