DreEX6056250 @ danRer10
Exon Skipping
Gene
ENSDARG00000078322 | col12a1a
Description
collagen, type XII, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-090728-1]
Coordinates
chr17:49780007-49783824:-
Coord C1 exon
chr17:49783692-49783824
Coord A exon
chr17:49783567-49783587
Coord C2 exon
chr17:49780007-49780146
Length
21 bp
Sequences
Splice sites
3' ss Seq
CTGTATCCTCCTGACTGCAGTGG
3' ss Score
5.78
5' ss Seq
CACGTGAGT
5' ss Score
9.3
Exon sequences
Seq C1 exon
GATATCCTGAGTAGTGAAGACACTACATATGATCTGGTGGACCTGGAGCCAGACACACCTTATGATGTTTCGGTCACTGCCATTTACCCTGATGAGTCTGAGAGCGAGGATCTGCTGGGCACTGAACGCACTT
Seq A exon
TGGCCAAGCTTGCTACACCAC
Seq C2 exon
CTCCCAGTGGTCCTCCTCAAAACCTCCAGGTGTTCGACGAGACCACCACCTCCCTCACGACTAAGTGGGACCACGCGCCTGGACGAGTTCAGAACTACAAAATCACCTACGTACCGCTTACTGGAGGACGATCACAGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078322-'31-32,'31-31,32-32=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=1.000 C2=0.532
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(43.8=77.8)
A:
NO
C2:
PF0004116=fn3=PU(53.8=91.5)
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:
CCCTGATGAGTCTGAGAGCGA
R:
CTTAGTCGTGAGGGAGGTGGT
Band lengths:
112-133
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]