DreEX0023083 @ danRer10
Exon Skipping
Gene
ENSDARG00000012405 | col1a1a
Description
collagen, type I, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-030131-9102]
Coordinates
chr3:23102419-23104136:+
Coord C1 exon
chr3:23102419-23102580
Coord A exon
chr3:23103037-23103144
Coord C2 exon
chr3:23104029-23104136
Length
108 bp
Sequences
Splice sites
3' ss Seq
CATTCCTCTTACTTTTTCAGGGC
3' ss Score
11.78
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
Exon sequences
Seq C1 exon
GGAAATTCTGGACCCCCAGGACCTCCTGGACCCGCTGGTAAGGAGGGCCAGAAAGGTAACCGTGGTGAGACTGGACCTGCTGGTCGTACTGGTGAAGTTGGTGCTGCTGGACCACCTGGTGCCCCTGGTGAGAAAGGAAATCCCGGAGCTGAGGGTGCCACT
Seq A exon
GGCCCTGCTGGTATCCCTGGACCTCAAGGTATTGGTGGTCAGCGTGGTATTGTAGGTCTCCCTGGACAAAGAGGCGAGCGTGGTTTCCCCGGTCTCCCTGGCCCATCT
Seq C2 exon
GGACCCGCTGGAGCTCGTGGAGACAAGGGTGAGACTGGTGAGGCTGGTGAGAGAGGCATGAAGGGACACAGAGGATTCACTGGAATGCCAGGACCCCCTGGTCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012405_MULTIEX1-33/40=32-38
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=PU(46.8=81.5)
A:
PF0139113=Collagen=FE(37.2=100),PF0139113=Collagen=PU(26.7=63.9)
C2:
PF0139113=Collagen=PD(17.6=41.7),PF0139113=Collagen=FE(50.7=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:
GACCTCCTGGACCCGCTG
R:
AGGGGGTCCTGGCATTCC
Band lengths:
242-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]