RnoEX6062726 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31473819-31477405:-
Coord C1 exon
chr20:31477361-31477405
Coord A exon
chr20:31474624-31474665
Coord C2 exon
chr20:31473819-31473845
Length
42 bp
Sequences
Splice sites
3' ss Seq
AGCTTCCCTTTGGTTTCTAGGTG
3' ss Score
9.35
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GGAGAGAAAGGAGAGGCTGGGGAGAAAGGTGACCCAGGAGCAGAG
Seq A exon
GTGCCTGGGCCGCCAGGGCCAGAGGGTCCTCCAGGACCGCCG
Seq C2 exon
GGCCTCCAAGGTATTCCAGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552-'34-38,'34-37,35-38=AN
Average complexity
A_S
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=FE(17.7=100)
A:
PF0139113=Collagen=FE(16.5=100),PF0139113=Collagen=PU(17.5=78.6)
C2:
PF0139113=Collagen=FE(10.1=100),PF0139113=Collagen=FE(12.7=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGAAAGGAGAGGCTGGGG
R:
TGGTCCTGGAATACCTTGGAGG
Band lengths:
68-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]