DreEX0023196 @ danRer10
Exon Skipping
Gene
ENSDARG00000069093 | col2a1a
Description
collagen, type II, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-980526-192]
Coordinates
chr8:21181805-21182429:+
Coord C1 exon
chr8:21181805-21181858
Coord A exon
chr8:21181941-21182048
Coord C2 exon
chr8:21182141-21182429
Length
108 bp
Sequences
Splice sites
3' ss Seq
ACCATTGTTATTTATAATAGGGA
3' ss Score
6.61
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
Exon sequences
Seq C1 exon
GGTTCTCCTGGAGACCAGGGTGCTGCTGGACCTGCTGGACCTTCTGGTGCTAAA
Seq A exon
GGACCTTCAGGACCTGTTGGACCTGCTGGTAAGGATGGTTCTAATGGTCAGCCTGGACCCATTGGTCCACCTGGACCTCGTGGACGCTCTGGAGAGTCTGGCCCAGTT
Seq C2 exon
GGTCCTCCTGGTAACCCCGGACCCCCTGGTCCTCCTGGTCCCCCTGGCCCTGGCATTGACATGTCTGCCTTCGCTGGATTGTCTCAGCCAGAGAAGGGACCCGATCCTCTGCGTTACATGCGTGCAGATGAAGCCTCCAGCTCTCTCAGACAACACGATGTGGAGGTGGACGCCACTCTGAAGTCCATCAACGGGCAGATTGAGGATATCCGCAGCCCCGATGGCTCCCGCAAGAATCCTGCACGCTCCTGCCGAGACCTGAAACTCTGCCACCCTGAATGGAAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069093-'57-54,'57-52,58-54
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=0.897
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(25.0=100),PF0139113=Collagen=PU(8.2=27.8)
A:
PF0139113=Collagen=PD(5.9=11.1),PF0139113=Collagen=FE(57.4=100)
C2:
PF0139113=Collagen=PD(29.5=18.6),PF0141013=COLFI=PU(12.4=27.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGACCTGCTGGACCTTCT
R:
GCGGATATCCTCAATCTGCCC
Band lengths:
242-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]