DreEX0023223 @ danRer10
Exon Skipping
Gene
ENSDARG00000069093 | col2a1a
Description
collagen, type II, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-980526-192]
Coordinates
chr8:21175155-21175995:+
Coord C1 exon
chr8:21175155-21175253
Coord A exon
chr8:21175746-21175799
Coord C2 exon
chr8:21175942-21175995
Length
54 bp
Sequences
Splice sites
3' ss Seq
TGTATCTCCCTCTCACATAGGGT
3' ss Score
9.1
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGTGCTCCTGGTGATCGTGGTGTTCCAGGTTTGAGTGGACCGAAAGGAGGCACTGGAGATCCTGGTCGCCCTGGTGAACCTGGTCTTCCTGGAGCCAGA
Seq A exon
GGTGAACCTGGAAAACCTGGAGAGAAAGGACTTGTTGGACGCACTGGTCTTAGA
Seq C2 exon
GGTTTGCCTGGTAAAGATGGAGAGACTGGACCTTCTGGTCCTCCTGGCCCTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069093_MULTIEX3-3/4=C1-4
Average complexity
C3
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(12.9=27.3),PF0139113=Collagen=FE(38.1=100)
A:
PF0139113=Collagen=FE(23.3=100),PF0139113=Collagen=PU(3.1=11.1)
C2:
PF0139113=Collagen=PD(16.4=66.7),PF0139113=Collagen=FE(26.2=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:
CTCCTGGTGATCGTGGTGTTC
R:
CCAGAAGGTCCAGTCTCTCCA
Band lengths:
133-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]