GgaEX0005707 @ galGal4
Exon Skipping
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10621074-10622668:+
Coord C1 exon
chr6:10621074-10621172
Coord A exon
chr6:10621800-10621853
Coord C2 exon
chr6:10622627-10622668
Length
54 bp
Sequences
Splice sites
3' ss Seq
GGCTGTGTTGTTGTGTGCAGGGA
3' ss Score
8.62
5' ss Seq
TCGGTAGGT
5' ss Score
9.09
Exon sequences
Seq C1 exon
GGTCTTGATGGCCCCACTGGAGAGAAAGGAGAACGAGGTGACCAAGGGATGCCAGGACCACCAGGATTGCCGGGTCCCATTGGACTTCCAGGATTGACA
Seq A exon
GGAGAGAAGGGTCAGCCTGGGGAGCGTGGAGACAAAGGAAATCCAGGAGAATCG
Seq C2 exon
ATGTCTGGTCCCCCTGGACCTCAAGGCCCACCAGGACCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286_MULTIEX3-10/12=9-11
Average complexity
C1
Mappability confidence:
98%=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(38.0=90.9),PF0139113=Collagen=FE(36.0=100)
A:
PF0139113=Collagen=FE(19.1=100),PF0139113=Collagen=PU(0.1=0.0)
C2:
PF0139113=Collagen=FE(14.6=100),PF0139113=Collagen=FE(11.8=100)
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:
CTTGATGGCCCCACTGGAGAG
R:
TCCTGGTGGGCCTTGAGG
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]