GgaEX1016562 @ galGal4
Exon Skipping
Gene
ENSGALG00000006708 | COL23A1
Description
collagen, type XXIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22990]
Coordinates
chr13:13601682-13605658:+
Coord C1 exon
chr13:13601682-13601768
Coord A exon
chr13:13603186-13603263
Coord C2 exon
chr13:13605620-13605658
Length
78 bp
Sequences
Splice sites
3' ss Seq
AGTTATTTTTTCTTAAACAGGGA
3' ss Score
8.26
5' ss Seq
CTGGTACAG
5' ss Score
3.91
Exon sequences
Seq C1 exon
GGCGAGCGAGGGATACCAGGGAGAAAAGGAGCCAAAGGGCAGAAGGGGGAACCCGGCCCTCCTGGACTGGACCAACCCTGCCCTGTG
Seq A exon
GGAGATCGTAGTATTACAGGCAGCAATGGGGATCCAGGTCTGCCAGGCCTGGATGGGGTGAGCGTGCCCTGCCCACTG
Seq C2 exon
GGACCAGACGGACTGCCAGTAGCAGGATGTTGGCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006708_CASSETTE4
Average complexity
S
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=0.962
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(41.3=89.7)
A:
NO
C2:
PF0139113=Collagen=PD(5.7=30.8)
Main Inclusion Isoform:
ENSGALT00000010851fB6347
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCAGGGAGAAAAGGAGCCA
R:
TGTGCCAACATCCTGCTACTG
Band lengths:
111-189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]