DreEX6049530 @ danRer10
Exon Skipping
Gene
ENSDARG00000069093 | col2a1a
Description
collagen, type II, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-980526-192]
Coordinates
chr8:21176564-21176951:+
Coord C1 exon
chr8:21176564-21176617
Coord A exon
chr8:21176719-21176763
Coord C2 exon
chr8:21176853-21176951
Length
45 bp
Sequences
Splice sites
3' ss Seq
GCCATTCTTTCTCTGCATAGGGT
3' ss Score
9.69
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
Exon sequences
Seq C1 exon
GGTCTGCCTGGACCTACTGGAGCCCCCGGAGAACCTGGTAAACCTGGTGACCAG
Seq A exon
GGTGTTCCTGGAGAGGGTGGTGCTGCCGGTCCCACTGGACCAAGA
Seq C2 exon
GGTGAGCGTGGTTTCCCTGGTGAGAGAGGAGGCGCTGGCCCTCAGGGTCTCCAAGGACCAAGAGGACTTCCAGGAACTCCCGGAACAGATGGACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069093-'36-35,'36-34,37-35=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(26.2=100),PF0139113=Collagen=PU(3.2=11.1)
A:
PF0139113=Collagen=PD(10.8=46.7),PF0139113=Collagen=FE(22.2=100)
C2:
PF0139113=Collagen=FE(50.8=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:
GTCTGCCTGGACCTACTGGAG
R:
TCCATCTGTTCCGGGAGTTCC
Band lengths:
146-191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]