GgaEX0005706 @ galGal4
Exon Skipping
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10620380-10621853:+
Coord C1 exon
chr6:10620380-10620532
Coord A exon
chr6:10621074-10621172
Coord C2 exon
chr6:10621800-10621853
Length
99 bp
Sequences
Splice sites
3' ss Seq
AAATCTTTCTTGATTCATAGGGT
3' ss Score
7.17
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
Exon sequences
Seq C1 exon
GGACCACGAGGCAAGCCAGGAGAAATGGGACCTCCTGGACCTCATGGACTGCCAGGAAGGGATGGACCACCTGGAATAAAGGGAGAGCCAGGCCAGATTGGGGTCGCAGGAGAAAAGGGGGATAAAGGAGAGCCAGGACAAGCAGGCTCACCG
Seq A exon
GGTCTTGATGGCCCCACTGGAGAGAAAGGAGAACGAGGTGACCAAGGGATGCCAGGACCACCAGGATTGCCGGGTCCCATTGGACTTCCAGGATTGACA
Seq C2 exon
GGAGAGAAGGGTCAGCCTGGGGAGCGTGGAGACAAAGGAAATCCAGGAGAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286-'41-41,'41-39,42-41
Average complexity
C1
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(40.0=47.1),PF0139113=Collagen=PU(56.2=80.4),PF0139113=Collagen=PU(8.5=15.7)
A:
PF0139113=Collagen=PD(38.0=90.9),PF0139113=Collagen=FE(36.0=100)
C2:
PF0139113=Collagen=FE(19.1=100),PF0139113=Collagen=PU(0.1=0.0)
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:
CAAGCCAGGAGAAATGGGACC
R:
TTTCCTTTGTCTCCACGCTCC
Band lengths:
183-282
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]