DreEX6019091 @ danRer10
Exon Skipping
Gene
ENSDARG00000098294 | col5a3a
Description
collagen, type V, alpha 3a [Source:ZFIN;Acc:ZDB-GENE-030131-968]
Coordinates
chr3:53636614-53637386:+
Coord C1 exon
chr3:53636614-53636667
Coord A exon
chr3:53637136-53637243
Coord C2 exon
chr3:53637333-53637386
Length
108 bp
Sequences
Splice sites
3' ss Seq
GTTTTTTAATTTTTGCTCAGGGT
3' ss Score
6.84
5' ss Seq
AAGGTTATT
5' ss Score
4.15
Exon sequences
Seq C1 exon
GGTGAGGATGGTTTCCCTGGAGCCAAAGGTGAAATGGGCATCAAAGGAGACAGA
Seq A exon
GGTGATAATGGTTCTCCTGGAAGTCGTGGTGAAGATGGGCCAGAGGGACCAAAGGGTCAATCAGGACCTTTAGGAGAGCCTGGATCTGCAGGCATTGCTGGAGAAAAG
Seq C2 exon
GGGAAACTTGGTGTTCCAGGATTGCCTGGTTATCCCGGTAGGCAGGGCTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098294-'31-32,'31-31,32-32=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:
NO
A:
PF0139113=Collagen=PU(2.3=5.6)
C2:
PF0139113=Collagen=FE(19.5=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
GGTGAGGATGGTTTCCCTGGA
R:
CTTTGAGCCCTGCCTACCG
Band lengths:
108-216
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]