RnoEX0022843 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31468363-31473452:-
Coord C1 exon
chr20:31473372-31473452
Coord A exon
chr20:31470531-31470566
Coord C2 exon
chr20:31468363-31468416
Length
36 bp
Sequences
Splice sites
3' ss Seq
ACACTGTGCCCTTCGTCCAGGGA
3' ss Score
7.54
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
Exon sequences
Seq C1 exon
GGAGAAGCAGGCCTAGATGGCAGTAAAGGAGAGAAGGGCTCCCAGGGAGAAAAAGGAGACCGGGGGCCTCTGGGATTGCCT
Seq A exon
GGAGCTTCAGGTTTGGACGGCAGGCCTGGGCCACCG
Seq C2 exon
GGTACTCCAGGACCAATCGGGGTTCCAGGCCCAGCCGGACCAAAGGGCGAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552_MULTIEX2-1/2=C1-C2
Average complexity
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=PD(1.3=3.7),PF0139113=Collagen=FE(41.3=100)
A:
PF0139113=Collagen=FE(17.5=100)
C2:
PF0139113=Collagen=PU(2.9=11.1)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAGTAAAGGAGAGAAGGGC
R:
CTTTCGCCCTTTGGTCCGG
Band lengths:
116-152
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]