GgaEX0028722 @ galGal4
Exon Skipping
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10607214-10612809:+
Coord C1 exon
chr6:10607214-10607276
Coord A exon
chr6:10607883-10607909
Coord C2 exon
chr6:10612777-10612809
Length
27 bp
Sequences
Splice sites
3' ss Seq
GTCTGTTCTTCGCTGGGCAGGGT
3' ss Score
7.43
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
Exon sequences
Seq C1 exon
GGTGAGGCTGGCATGTCAGGCCTGCCTGGTGCACATGGCCTCCCTGGAGCTACTGGCCCCAAG
Seq A exon
GGTGAAAAAGGGAACACTGGCATAAAG
Seq C2 exon
GGTGCTCCTGGGACAGCCACGGCAGGGATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286_MULTIEX4-9/14=8-12
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(29.4=100),PF0139113=Collagen=PU(3.2=9.5)
A:
PF0139113=Collagen=FE(12.9=100)
C2:
PF0139113=Collagen=PD(11.3=63.6),PF0139113=Collagen=PU(12.8=45.5)
Main Inclusion Isoform:
ENSGALT00000006816fB3614
Main Skipping Isoform:
ENSGALT00000006816fB616
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GGTGAGGCTGGCATGTCAG
R:
CTTCATCCCTGCCGTGGC
Band lengths:
96-123
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]