GgaEX1016390 @ galGal4
Exon Skipping
Gene
ENSGALG00000026836 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr23:4930675-4931029:-
Coord C1 exon
chr23:4930940-4931029
Coord A exon
chr23:4930803-4930847
Coord C2 exon
chr23:4930675-4930710
Length
45 bp
Sequences
Splice sites
3' ss Seq
CCGCGTGTGCTGATCAGCAGGAC
3' ss Score
3.83
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
Exon sequences
Seq C1 exon
GGGGACTCCTGCCTGTCCTGTGACAGCCGTGTCCTCGCTGCGCTGCTGCGGGAACTCCCCGAGGGGCGTGAGAGCGAACTGGGATCACTG
Seq A exon
GACAAAGCAATCCTTCCTGGGCTGGCTGGCATCAAGGGCGAGAAG
Seq C2 exon
GGAGCTGATGGCCGGGAGGGACCTGCAGGCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026836-'30-33,'30-32,31-33
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.567 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(8.7=13.3),PF0139113=Collagen=PU(3.0=6.7)
A:
PF0139113=Collagen=FE(21.2=100)
C2:
PF0139113=Collagen=FE(16.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACTCCTGCCTGTCCTGT
R:
CTGTCTGCCTGCAGGTCCC
Band lengths:
124-169
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]