GgaEX7010588 @ galGal4
Exon Skipping
Gene
ENSGALG00000026836 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr23:4927888-4928243:-
Coord C1 exon
chr23:4928190-4928243
Coord A exon
chr23:4928036-4928089
Coord C2 exon
chr23:4927888-4927932
Length
54 bp
Sequences
Splice sites
3' ss Seq
AGCTCTCTCCTTGGCTTTAGGGG
3' ss Score
8.18
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
Exon sequences
Seq C1 exon
GGTCCCCCTGGAGCGCCTGGTCCCCCCGGTCCTCCTGGTGCTCCAGGCCGCCAG
Seq A exon
GGGGTCCCAGGACACAACGGATTGCCAGGGCTGCCCGGACCGGCAGGAGACCTG
Seq C2 exon
GGACCATTGGCTGTCATGGCTGAGAGGAACATCGAGGTGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026836-'51-56,'51-55,52-56=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=0.467
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(28.3=100)
A:
PF0139113=Collagen=FE(28.3=100)
C2:
PF0139113=Collagen=PD(5.0=20.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCTCCTGGTGCTCCA
R:
AGCACCTCGATGTTCCTCTCA
Band lengths:
68-122
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]