GgaEX1016359 @ galGal4
Exon Skipping
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10603679-10605158:+
Coord C1 exon
chr6:10603679-10603795
Coord A exon
chr6:10604246-10604287
Coord C2 exon
chr6:10605132-10605158
Length
42 bp
Sequences
Splice sites
3' ss Seq
ATACTTCTCTCTTGCAACAGGGC
3' ss Score
8.83
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
Exon sequences
Seq C1 exon
GGTGAACAAGGACAAGCAGGAATCCAAGGTCCTCCGGGGCCACCCGGCCCGCCAGGGCCTGCTGGACCAGCTGGACCCGAGGGAACCCCAGGACAGCCTGGACCGATTGGGCCACCT
Seq A exon
GGCAGAGCTGGAGAACCTGGGAAGCCTGGCAGAGATGGAAAG
Seq C2 exon
GGCTTACCTGGGCCTCCTGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286_MULTIEX4-5/14=4-6
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(59.4=100),PF0139113=Collagen=PU(13.8=33.3)
A:
PF0139113=Collagen=FE(23.2=100),PF0139113=Collagen=PU(2.2=7.1)
C2:
PF0139113=Collagen=FE(14.3=100),PF0139113=Collagen=FE(12.9=100)
Main Inclusion Isoform:
ENSGALT00000006816fB6334
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
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:
GGTGAACAAGGACAAGCAGGA
R:
GTCCAGGAGGCCCAGGTAAG
Band lengths:
139-181
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]