DreEX6049525 @ danRer10
Exon Skipping
Gene
ENSDARG00000069093 | col2a1a
Description
collagen, type II, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-980526-192]
Coordinates
chr8:21181609-21182048:+
Coord C1 exon
chr8:21181609-21181716
Coord A exon
chr8:21181805-21181858
Coord C2 exon
chr8:21181941-21182048
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTGTGTCTTCTCAATAAAGGGT
3' ss Score
5.99
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
Exon sequences
Seq C1 exon
GGACCCCAAGGACCTCGTGGTGATAAGGGTGAGGCAGGAGAAGCTGGAGAAAGAGGCCAGAAGGGACACAGAGGATTCACTGGTCTGCAGGGTCTGCCCGGACCTCCC
Seq A exon
GGTTCTCCTGGAGACCAGGGTGCTGCTGGACCTGCTGGACCTTCTGGTGCTAAA
Seq C2 exon
GGACCTTCAGGACCTGTTGGACCTGCTGGTAAGGATGGTTCTAATGGTCAGCCTGGACCCATTGGTCCACCTGGACCTCGTGGACGCTCTGGAGAGTCTGGCCCAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069093-'56-52,'56-51,57-52=AN
Average complexity
A_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:
PF0139113=Collagen=FE(51.5=100)
A:
PF0139113=Collagen=FE(25.0=100),PF0139113=Collagen=PU(8.2=27.8)
C2:
PF0139113=Collagen=PD(5.9=11.1),PF0139113=Collagen=FE(57.4=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:
ATTCACTGGTCTGCAGGGTCT
R:
AGACTCTCCAGAGCGTCCAC
Band lengths:
133-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]