GgaEX0005709 @ galGal4
Exon Skipping
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10624097-10627093:+
Coord C1 exon
chr6:10624097-10624177
Coord A exon
chr6:10625999-10626034
Coord C2 exon
chr6:10627040-10627093
Length
36 bp
Sequences
Splice sites
3' ss Seq
ACCTTCCCCCATCTGTTCAGGGT
3' ss Score
8.81
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
Exon sequences
Seq C1 exon
GGGGAAGCAGGGATTGATGGAATGAAAGGAGAGAAGGGTGTCCAGGGTGAAAAAGGAGACAGAGGACCACTGGGATTACCC
Seq A exon
GGTGCTTCAGGTTTAGACGGCAGGCCTGGACCACCG
Seq C2 exon
GGTACTCCAGGACCAATTGGGGTTTCGGGACCAGCAGGACCAAAAGGAGAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286_CASSETTE1
Average complexity
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:
PF0139113=Collagen=PD(10.6=37.0),PF0139113=Collagen=FE(41.9=100),PF0139113=Collagen=PU(28.0=85.2)
A:
PF0139113=Collagen=PD(11.9=58.3),PF0139113=Collagen=FE(13.3=100)
C2:
PF0139113=Collagen=FE(20.7=100),PF0139113=Collagen=PU(2.9=11.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGAAGCAGGGATTGATGGA
R:
GTCCCGAAACCCCAATTGGTC
Band lengths:
112-148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]