RnoEX0022845 @ rn6
Exon Skipping
Gene
ENSRNOG00000000552 | Col13a1
Description
collagen type XIII alpha 1 chain [Source:RGD Symbol;Acc:1595704]
Coordinates
chr20:31504325-31510067:-
Coord C1 exon
chr20:31510041-31510067
Coord A exon
chr20:31507153-31507218
Coord C2 exon
chr20:31504325-31504432
Length
66 bp
Sequences
Splice sites
3' ss Seq
CAACTCATATCTCTCCTCAGCTG
3' ss Score
7.16
5' ss Seq
CAGGTAGAT
5' ss Score
7.25
Exon sequences
Seq C1 exon
GGTCAGTGTGGAGAATACCCACACCGG
Seq A exon
CTGCTGCCTCTCCTCAATTCAGTGCGGCTGGCTCCACCCCCAGTCATTAAAAGGCGGACCTTTCAG
Seq C2 exon
GGGGAACAAAGCCAGGCTGGCATCCAAGGCCCTCCAGGGCCACCGGGCCCCCCAGGACCAATTGGCCCTCTGGGACACCCAGGACTGCCAGGGCCTATAGGGCCACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000552_MULTIEX3-2/2=C1-C2
Average complexity
ME(1-2[99=100])
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.773 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(8.3=55.6)
A:
PF0139113=Collagen=PU(4.7=13.6)
C2:
PF0139113=Collagen=FE(54.7=100),PF0139113=Collagen=PU(24.1=38.9)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCAGTGTGGAGAATACCCAC
R:
CTATAGGCCCTGGCAGTCCTG
Band lengths:
127-193
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]