GgaEX0005698 @ galGal4
Exon Skipping
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10597299-10603795:+
Coord C1 exon
chr6:10597299-10597325
Coord A exon
chr6:10600651-10600716
Coord C2 exon
chr6:10603679-10603795
Length
66 bp
Sequences
Splice sites
3' ss Seq
CCTTCTGGTTTGATCTCCAGCTG
3' ss Score
8.25
5' ss Seq
CAGGTAGAC
5' ss Score
6.89
Exon sequences
Seq C1 exon
GGTCAGTGTGCAGAGTACTCCCACAGG
Seq A exon
CTGTTGCCTCTCCTCAATTCAGTGCGGCTGGCTCCACCTCCGGTCATAAAGAGACGCACTTTCCAG
Seq C2 exon
GGTGAACAAGGACAAGCAGGAATCCAAGGTCCTCCGGGGCCACCCGGCCCGCCAGGGCCTGCTGGACCAGCTGGACCCGAGGGAACCCCAGGACAGCCTGGACCGATTGGGCCACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286_MULTIEX4-3/14=1-4
Average complexity
ME(2-3[99=98])
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.909 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(6.7=44.4)
A:
PF0139113=Collagen=PU(4.7=13.6)
C2:
PF0139113=Collagen=FE(59.4=100),PF0139113=Collagen=PU(13.8=33.3)
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:
GTCAGTGTGCAGAGTACTCCC
R:
AGGTGGCCCAATCGGTCC
Band lengths:
143-209
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]