GgaEX1016404 @ galGal4
Exon Skipping
Gene
ENSGALG00000026836 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr23:4930294-4931487:-
Coord C1 exon
chr23:4931371-4931487
Coord A exon
chr23:4931246-4931281
Coord C2 exon
chr23:4930294-4930425
Length
36 bp
Sequences
Splice sites
3' ss Seq
TCCCATCTCTCCATCTCCAGGAC
3' ss Score
11.78
5' ss Seq
AGGGTAGGT
5' ss Score
8.1
Exon sequences
Seq C1 exon
GGTGAGCCGTGCCAGCCGTGCCCCGCTCTGCCCACGGGGATGCTCAGCACTGCGGGGCTTCCTGGAAAGCCCGGACCCAGGGGGGAGCCCGGGACACCTGGCAGGGATGGAGTGTCG
Seq A exon
GACAGACCCGGCCCTGTGGGACCCAAAGGAGACAGG
Seq C2 exon
GGTGAGCCGTGTGGACAGTGTCCCTCAGCTCCACAGGCACTGGAAGGGGCAGCAACAACGGTGGCTGTGCCCGGAGCACCGGGACCACAGGGCAGGGATGGTCCCCCTGGCAGAGCAGTGAGTGCCCCCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026836_MULTIEX1-10/20=9-13
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(21.3=33.3),PF0139113=Collagen=PU(60.9=71.8)
A:
PF0139113=Collagen=FE(18.0=100)
C2:
PF0139113=Collagen=PD(25.8=38.6),PF0139113=Collagen=PU(3.3=4.5)
Main Inclusion Isoform:
ENSGALT00000045237fB6338
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:
ACGGGGATGCTCAGCACT
R:
TGGAGCTGAGGGACACTGTC
Band lengths:
117-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]