GgaEX0005700 @ galGal4
Exon Skipping
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10605879-10612809:+
Coord C1 exon
chr6:10605879-10605914
Coord A exon
chr6:10611149-10611193
Coord C2 exon
chr6:10612777-10612809
Length
45 bp
Sequences
Splice sites
3' ss Seq
GTTTCTTGCTCTGCTTCCAGGGG
3' ss Score
9.48
5' ss Seq
AAGGTACTT
5' ss Score
8.4
Exon sequences
Seq C1 exon
GGAGACCCTGGGATTCAAGGATACCCTGGCAGAAAG
Seq A exon
GGGGAGAGAGGCATGCCAGGGCTGCCAGGAAGACATGGCATGAAG
Seq C2 exon
GGTGCTCCTGGGACAGCCACGGCAGGGATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286_MULTIEX4-10/14=7-12
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(10.3=50.0),PF0139113=Collagen=FE(16.2=100)
A:
PF0139113=Collagen=FE(20.6=100),PF0139113=Collagen=FE(22.6=100)
C2:
PF0139113=Collagen=PD(11.3=63.6),PF0139113=Collagen=PU(12.8=45.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGACCCTGGGATTCAAGGA
R:
CTTCATCCCTGCCGTGGC
Band lengths:
69-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]