DreEX0023202 @ danRer10
Exon Skipping
Gene
ENSDARG00000069093 | col2a1a
Description
collagen, type II, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-980526-192]
Coordinates
chr8:21180756-21181716:+
Coord C1 exon
chr8:21180756-21180863
Coord A exon
chr8:21181244-21181297
Coord C2 exon
chr8:21181609-21181716
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTATTCTTTTCATTCTAAAGGGC
3' ss Score
7.99
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
Exon sequences
Seq C1 exon
GGTGAGCGTGGTAACACTGGCCCAATTGGTGCTCCTGGAGCTCCTGGTGCCCCTGGCGCTCCTGGTTCAGTTGGTCCAATTGGCAAACAGGGAGACAGAGGAGAGAAT
Seq A exon
GGCCCACAAGGACCTGCTGGACCCCCTGGACCCGCTGGAGCTCGAGGCATGGTT
Seq C2 exon
GGACCCCAAGGACCTCGTGGTGATAAGGGTGAGGCAGGAGAAGCTGGAGAAAGAGGCCAGAAGGGACACAGAGGATTCACTGGTCTGCAGGGTCTGCCCGGACCTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069093_CASSETTE4
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=1.000 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
PF0139113=Collagen=PU(11.8=44.4)
C2:
PF0139113=Collagen=FE(51.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTAACACTGGCCCAATTGGT
R:
TCCTGCCTCACCCTTATCACC
Band lengths:
138-192
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]